Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008129.1 Hibiscus syriacus cultivar Beakdansim tig00110684_pilon, whole genome shotgun sequence
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: 2577775
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 10
Found at i:972243 original size:17 final size:17
Alignment explanation
Indices: 972223--972321 Score: 62
Period size: 17 Copynumber: 5.6 Consensus size: 17
972213 CACAAGATAT
972223 ATAAATATATAATATAA
1 ATAAATATATAATATAA
972240 AT-AATAATATAATAATAA
1 ATAAAT-ATATAAT-ATAA
* *
972258 AT--ATATTTACATATTA
1 ATAAATATATA-ATATAA
*
972274 ATAATATATATAAATATTAT
1 ATAA-ATATAT-AATA-TAA
*
972294 ATACATAATATAATAATAA
1 ATAAAT-ATATAAT-ATAA
972313 A-AAATATAT
1 ATAAATATAT
972322 TTATTTGTTA
Statistics
Matches: 64, Mismatches: 8, Indels: 20
0.70 0.09 0.22
Matches are distributed among these distances:
16 12 0.19
17 17 0.27
18 9 0.14
19 16 0.25
20 10 0.16
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (17 bp):
ATAAATATATAATATAA
Found at i:972277 original size:26 final size:26
Alignment explanation
Indices: 972248--972341 Score: 82
Period size: 29 Copynumber: 3.4 Consensus size: 26
972238 AAATAATAAT
972248 ATAATAATAAATATATTTACATATTA
1 ATAATAATAAATATATTTACATATTA
*
972274 ATAATATATATAAATATTATATACATAATATA
1 AT-A-ATA-ATAAATA-TATTTACAT-AT-TA
* ** *
972306 ATAATAAAAAATATATTTATTTGTTA
1 ATAATAATAAATATATTTACATATTA
972332 ATAAT-ATAAA
1 ATAATAATAAA
972342 AATAAAATAA
Statistics
Matches: 55, Mismatches: 7, Indels: 13
0.73 0.09 0.17
Matches are distributed among these distances:
25 4 0.07
26 9 0.16
27 2 0.04
28 9 0.16
29 13 0.24
30 11 0.20
31 3 0.05
32 4 0.07
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.41
Consensus pattern (26 bp):
ATAATAATAAATATATTTACATATTA
Found at i:972281 original size:58 final size:58
Alignment explanation
Indices: 972219--972355 Score: 161
Period size: 58 Copynumber: 2.3 Consensus size: 58
972209 AATACACAAG
*
972219 ATATATAAATATATAATATAAATAATA-ATATAATAATAAATATATTTACATATTAATA
1 ATATATAAATATATAATATAAATAATATA-ATAATAAAAAATATATTTACATATTAATA
* * ** *
972277 ATATATATAA-ATATTATATACATAATATAATAATAAAAAATATATTTATTTGTTAATA
1 ATATATA-AATATATAATATAAATAATATAATAATAAAAAATATATTTACATATTAATA
* *
972335 ATATAAAAATAAAATAATATA
1 ATATATAAAT-ATATAATATA
972356 TAACTAACAG
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
57 2 0.03
58 53 0.80
59 11 0.17
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (58 bp):
ATATATAAATATATAATATAAATAATATAATAATAAAAAATATATTTACATATTAATA
Found at i:972505 original size:18 final size:19
Alignment explanation
Indices: 972482--972521 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
972472 CCAAGTATCT
972482 AAATAAGACAC-AAAT-CCA
1 AAATAAGA-ACGAAATACCA
972500 AAATAAGAACGAAATACCA
1 AAATAAGAACGAAATACCA
972519 AAA
1 AAA
972522 AAATTGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 2 0.10
18 12 0.60
19 6 0.30
ACGTcount: A:0.65, C:0.17, G:0.07, T:0.10
Consensus pattern (19 bp):
AAATAAGAACGAAATACCA
Found at i:972869 original size:31 final size:31
Alignment explanation
Indices: 972833--972910 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
972823 TAAAAAATCA
*
972833 TAAGTTTTTGTCACTTACGTTATTGTTCTAT
1 TAAGTTTTTGTCACTTACGTTATTGTTCTAC
* ** *
972864 TAAGTTTTGGAGACTTACGTTATTGTTTTAC
1 TAAGTTTTTGTCACTTACGTTATTGTTCTAC
972895 TAAG-TTTTGATCACTT
1 TAAGTTTTTG-TCACTT
972911 GAACCTTGAA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
30 4 0.11
31 34 0.89
ACGTcount: A:0.22, C:0.12, G:0.15, T:0.51
Consensus pattern (31 bp):
TAAGTTTTTGTCACTTACGTTATTGTTCTAC
Found at i:974159 original size:31 final size:31
Alignment explanation
Indices: 974121--974193 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
974111 TGTCCAATTT
*
974121 ACCAAAACTTAATAAAACAATAATGT-AACTG
1 ACCAAAACTTAATAAAACAATAACGTCAA-TG
* *
974152 ACTAAAACTTAATAAAACGATAACGTCAATG
1 ACCAAAACTTAATAAAACAATAACGTCAATG
974183 ACCAAAACTTA
1 ACCAAAACTTA
974194 TGTTTTTTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
31 35 0.95
32 2 0.05
ACGTcount: A:0.53, C:0.18, G:0.07, T:0.22
Consensus pattern (31 bp):
ACCAAAACTTAATAAAACAATAACGTCAATG
Found at i:975222 original size:14 final size:14
Alignment explanation
Indices: 975203--975258 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
975193 CGTTCGTGAA
975203 CGTTCGATTATGTT
1 CGTTCGATTATGTT
*
975217 CGTTCGGTTATGTT
1 CGTTCGATTATGTT
975231 CG-T---TTATGTT
1 CGTTCGATTATGTT
*
975241 CTTTCGATTATGTT
1 CGTTCGATTATGTT
975255 CGTT
1 CGTT
975259 TATGTTCATT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
10 8 0.23
11 1 0.03
13 1 0.03
14 25 0.71
ACGTcount: A:0.11, C:0.14, G:0.21, T:0.54
Consensus pattern (14 bp):
CGTTCGATTATGTT
Found at i:975231 original size:24 final size:24
Alignment explanation
Indices: 975204--975278 Score: 98
Period size: 24 Copynumber: 3.1 Consensus size: 24
975194 GTTCGTGAAC
* *
975204 GTTCGATTATGTTCGTTCGGTTAT
1 GTTCGTTTATGTTCGTTCGATTAT
*
975228 GTTCGTTTATGTTCTTTCGATTAT
1 GTTCGTTTATGTTCGTTCGATTAT
*
975252 GTTCGTTTATGTTCATTC-ATTTAT
1 GTTCGTTTATGTTCGTTCGA-TTAT
975276 GTT
1 GTT
975279 TAACCCAATC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
23 1 0.02
24 45 0.98
ACGTcount: A:0.13, C:0.12, G:0.19, T:0.56
Consensus pattern (24 bp):
GTTCGTTTATGTTCGTTCGATTAT
Found at i:976429 original size:2 final size:2
Alignment explanation
Indices: 976422--976448 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
976412 TCTACCTTTA
976422 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
976449 GAGAGAGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:976453 original size:2 final size:2
Alignment explanation
Indices: 976448--976541 Score: 188
Period size: 2 Copynumber: 47.0 Consensus size: 2
976438 ATATATATAT
976448 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
976490 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
976532 AG AG AG AG AG
1 AG AG AG AG AG
976542 GTAGGTCTGT
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 92 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:989351 original size:108 final size:108
Alignment explanation
Indices: 989212--989469 Score: 349
Period size: 108 Copynumber: 2.4 Consensus size: 108
989202 TATACGGTCA
* * ** * * **
989212 TTCATAAACATATTATGAATTATGTGGGTTGCACACATAGT-TCCGAAATGATTTTTCATCAACA
1 TTCATCAACATATGATGAATTCCGTGAGTTGCACACATAGTGT-CGAAACGATTGCTCATCAACA
* *
989276 TATGATGAATTTAGTAAGTTGCACACATAGTG-TCGAAATAGTTT
65 TATGATGAATTTAGTAAGTTGCACACATAGTGCT-GAAACAGTTG
* *
989320 TTCATCAACATATGATGAATTCCATGAGTTGCACACATAGTGTCGAAACGATTGCTCATCATCAT
1 TTCATCAACATATGATGAATTCCGTGAGTTGCACACATAGTGTCGAAACGATTGCTCATCAACAT
* * *
989385 ATGATGAATTTCGTGAGTTGCACACATAGTGCTGAAACGGTTG
66 ATGATGAATTTAGTAAGTTGCACACATAGTGCTGAAACAGTTG
989428 TTCATCAACATATGATGAATTCCGTGAGTTGCACACATAGTG
1 TTCATCAACATATGATGAATTCCGTGAGTTGCACACATAGTG
989470 CCCATACGAA
Statistics
Matches: 132, Mismatches: 16, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
108 130 0.98
109 2 0.02
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (108 bp):
TTCATCAACATATGATGAATTCCGTGAGTTGCACACATAGTGTCGAAACGATTGCTCATCAACAT
ATGATGAATTTAGTAAGTTGCACACATAGTGCTGAAACAGTTG
Found at i:989465 original size:27 final size:27
Alignment explanation
Indices: 989382--989466 Score: 77
Period size: 27 Copynumber: 3.1 Consensus size: 27
989372 TGCTCATCAT
*
989382 CATATGATGAATTTCGTGAGTTGCACA
1 CATATGATGAATTCCGTGAGTTGCACA
* * * *
989409 CATAGTGCTGAA-ACGGT-TGTT-CATCAA
1 CATA-TGATGAATTCCGTGAGTTGCA-C-A
989436 CATATGATGAATTCCGTGAGTTGCACA
1 CATATGATGAATTCCGTGAGTTGCACA
989463 CATA
1 CATA
989467 GTGCCCATAC
Statistics
Matches: 43, Mismatches: 9, Indels: 12
0.67 0.14 0.19
Matches are distributed among these distances:
25 2 0.05
26 10 0.23
27 19 0.44
28 10 0.23
29 2 0.05
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.31
Consensus pattern (27 bp):
CATATGATGAATTCCGTGAGTTGCACA
Found at i:989470 original size:54 final size:55
Alignment explanation
Indices: 989212--989470 Score: 312
Period size: 54 Copynumber: 4.8 Consensus size: 55
989202 TATACGGTCA
* * ** * * * *
989212 TTCATAAACATATTATGAATTATGTGGGTTGCACACATAGTTC-CGAAATGATTT
1 TTCATCAACATATGATGAATTCCGTGAGTTGCACACATAGTGCTCGAAACGATTG
** * * *
989266 TTCATCAACATATGATGAATTTAGTAAGTTGCACACATAGTG-TCGAAA-TAGTTT
1 TTCATCAACATATGATGAATTCCGTGAGTTGCACACATAGTGCTCGAAACGA-TTG
*
989320 TTCATCAACATATGATGAATTCCATGAGTTGCACACATAGTG-TCGAAACGATTG
1 TTCATCAACATATGATGAATTCCGTGAGTTGCACACATAGTGCTCGAAACGATTG
* * * *
989374 CTCATCATCATATGATGAATTTCGTGAGTTGCACACATAGTGCT-GAAACGGTTG
1 TTCATCAACATATGATGAATTCCGTGAGTTGCACACATAGTGCTCGAAACGATTG
989428 TTCATCAACATATGATGAATTCCGTGAGTTGCACACATAGTGC
1 TTCATCAACATATGATGAATTCCGTGAGTTGCACACATAGTGC
989471 CCATACGAAA
Statistics
Matches: 179, Mismatches: 22, Indels: 8
0.86 0.11 0.04
Matches are distributed among these distances:
53 1 0.01
54 176 0.98
55 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.33
Consensus pattern (55 bp):
TTCATCAACATATGATGAATTCCGTGAGTTGCACACATAGTGCTCGAAACGATTG
Found at i:989500 original size:108 final size:108
Alignment explanation
Indices: 989274--989504 Score: 288
Period size: 108 Copynumber: 2.1 Consensus size: 108
989264 TTTTCATCAA
* * *
989274 CATATGATGAATTTAGTAAGTTGCACACATAGTGTCGAAATAGTTTTTCATCAACATATGATGAA
1 CATATGATGAATTTCGTAAGTTGCACACATAGTGTCGAAACAGTTGTTCATCAACATATGATGAA
* * *** *
989339 TTCCATGAGTTGCACACATAGTGTCGAAACGATTGCTCATCAT
66 TTCCATGAGTTGCACACATAGTGCCCAAACGAAAACTCATAAT
* *
989382 CATATGATGAATTTCGTGAGTTGCACACATAGTG-CTGAAACGGTTGTTCATCAACATATGATGA
1 CATATGATGAATTTCGTAAGTTGCACACATAGTGTC-GAAACAGTTGTTCATCAACATATGATGA
* * *
989446 ATTCCGTGAGTTGCACACATAGTGCCCATACGAAAATTCATAAACT
65 ATTCCATGAGTTGCACACATAGTGCCCAAACGAAAACTCAT-AA-T
989492 CAT-T-ATGAATTTC
1 CATATGATGAATTTC
989505 TTAGTTTTGC
Statistics
Matches: 106, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
107 1 0.01
108 99 0.93
109 2 0.02
110 4 0.04
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
Consensus pattern (108 bp):
CATATGATGAATTTCGTAAGTTGCACACATAGTGTCGAAACAGTTGTTCATCAACATATGATGAA
TTCCATGAGTTGCACACATAGTGCCCAAACGAAAACTCATAAT
Found at i:994054 original size:40 final size:37
Alignment explanation
Indices: 993983--994070 Score: 86
Period size: 40 Copynumber: 2.3 Consensus size: 37
993973 CAAATATTGT
* * * * *
993983 ACCGTAGAGCTGAGGTCGAGCCTTGCTCACCTAATAATGC
1 ACCGTAGTGTTGAGGTCGAGCCTTACCCACCT--T-ATAC
* *
994023 ACCGTAGTGTTGAGGTCGGGCTTTACCCACCTTATAC
1 ACCGTAGTGTTGAGGTCGAGCCTTACCCACCTTATAC
994060 ACCGTAGTGTT
1 ACCGTAGTGTT
994071 TTGTACCGTG
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
37 14 0.34
38 1 0.02
40 26 0.63
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.27
Consensus pattern (37 bp):
ACCGTAGTGTTGAGGTCGAGCCTTACCCACCTTATAC
Found at i:997995 original size:79 final size:79
Alignment explanation
Indices: 997864--998176 Score: 455
Period size: 79 Copynumber: 4.0 Consensus size: 79
997854 ATAAAATATA
* * * *
997864 CTTTTATGCTGATAATGCACCCATATGCATTTCAGCAATGGCACCCTTTCATGCCAATAATGCAC
1 CTTTTATGCTGACAATGTACCCATATACATTTCAGCAATGGCATCCTTTCATGCCAATAATGCAC
*
997929 CCATGTGCATTATT
66 CCATATGCATTATT
* * * *
997943 CTTTTATGCTGAAAATGTAACCATATATATTTCAGCTATGGCATCCTTTCATGCCAATAATGCAC
1 CTTTTATGCTGACAATGTACCCATATACATTTCAGCAATGGCATCCTTTCATGCCAATAATGCAC
998008 CCATATGCATTATT
66 CCATATGCATTATT
* * * * **
998022 CTTTTTTGCTGACAATGTACCCATATACATTTCATCTATGGCATCTTTTCATGCCAATAATGTGC
1 CTTTTATGCTGACAATGTACCCATATACATTTCAGCAATGGCATCCTTTCATGCCAATAATGCAC
*
998087 TCATATGCATTATT
66 CCATATGCATTATT
* **
998101 CTTTTATGCTGACAATGTACCCATAAACATTTCAGCAATGGCATAATTTCATGCCAATAATGCAC
1 CTTTTATGCTGACAATGTACCCATATACATTTCAGCAATGGCATCCTTTCATGCCAATAATGCAC
998166 CCATATGCATT
66 CCATATGCATT
998177 TCTATTTTCA
Statistics
Matches: 208, Mismatches: 26, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
79 208 1.00
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (79 bp):
CTTTTATGCTGACAATGTACCCATATACATTTCAGCAATGGCATCCTTTCATGCCAATAATGCAC
CCATATGCATTATT
Found at i:998462 original size:18 final size:18
Alignment explanation
Indices: 998439--998475 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
998429 TTCAGGAGCT
998439 TGATTCAAATCAACAACA
1 TGATTCAAATCAACAACA
*
998457 TGATTCCAATCAACAACA
1 TGATTCAAATCAACAACA
998475 T
1 T
998476 TATCCATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.24, G:0.05, T:0.24
Consensus pattern (18 bp):
TGATTCAAATCAACAACA
Found at i:1005058 original size:45 final size:43
Alignment explanation
Indices: 1005009--1005231 Score: 131
Period size: 45 Copynumber: 5.5 Consensus size: 43
1004999 TTTTATGCTG
1005009 ATAATGCACCCATATGCATTTCAGCGATGGCATCATTTCATGCCA
1 ATAATGCACCCATATGCATTTCAGC-AT-GCATCATTTCATGCCA
* * *
1005054 ATAATGCACCCATATGCA-TT----AT---TC-TTTTATACTA
1 ATAATGCACCCATATGCATTTCAGCATGCATCATTTCATGCCA
* * ** *
1005088 GTAATGTACCCATACACATTTCAGCTATAGCATCCTTTCATGCCA
1 ATAATGCACCCATATGCATTTCAGC-AT-GCATCATTTCATGCCA
* **
1005133 ATAATGCACTCATATGCA-TT----AT---TCATTT-ATGCTG
1 ATAATGCACCCATATGCATTTCAGCATGCATCATTTCATGCCA
* * * *
1005167 ACAATGTACCCATATACATTTCAGCTATGGCATCCTTTCATGCCA
1 ATAATGCACCCATATGCATTTCAGC-AT-GCATCATTTCATGCCA
1005212 ATAATGCACCCATATGCATT
1 ATAATGCACCCATATGCATT
1005232 ATTCTTTTAT
Statistics
Matches: 128, Mismatches: 28, Indels: 44
0.64 0.14 0.22
Matches are distributed among these distances:
34 39 0.30
35 11 0.09
39 4 0.03
40 4 0.03
44 11 0.09
45 59 0.46
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (43 bp):
ATAATGCACCCATATGCATTTCAGCATGCATCATTTCATGCCA
Found at i:1005129 original size:79 final size:79
Alignment explanation
Indices: 1004998--1005310 Score: 493
Period size: 79 Copynumber: 4.0 Consensus size: 79
1004988 ATAAAATATA
* * * * *
1004998 CTTTTATGCTGATAATGCACCCATATGCATTTCAGCGATGGCATCATTTCATGCCAATAATGCAC
1 CTTTTATGCTGACAATGTACCCATATACATTTCAGCTATGGCATCCTTTCATGCCAATAATGCAC
1005063 CCATATGCATTATT
66 CCATATGCATTATT
* * * *
1005077 CTTTTATACT-AGTAATGTACCCATACACATTTCAGCTATAGCATCCTTTCATGCCAATAATGCA
1 CTTTTATGCTGA-CAATGTACCCATATACATTTCAGCTATGGCATCCTTTCATGCCAATAATGCA
*
1005141 CTCATATGCATTATT
65 CCCATATGCATTATT
*
1005156 CATTTATGCTGACAATGTACCCATATACATTTCAGCTATGGCATCCTTTCATGCCAATAATGCAC
1 CTTTTATGCTGACAATGTACCCATATACATTTCAGCTATGGCATCCTTTCATGCCAATAATGCAC
1005221 CCATATGCATTATT
66 CCATATGCATTATT
* *
1005235 CTTTTATGCTGACAATGTACCCATATACATTTAAGCTATGGCATCCTTTTATGCCAATAATGCAC
1 CTTTTATGCTGACAATGTACCCATATACATTTCAGCTATGGCATCCTTTCATGCCAATAATGCAC
1005300 CCATATGCATT
66 CCATATGCATT
1005311 TATATTTTCA
Statistics
Matches: 215, Mismatches: 17, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
78 1 0.00
79 213 0.99
80 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (79 bp):
CTTTTATGCTGACAATGTACCCATATACATTTCAGCTATGGCATCCTTTCATGCCAATAATGCAC
CCATATGCATTATT
Found at i:1005181 original size:34 final size:34
Alignment explanation
Indices: 1005143--1005265 Score: 84
Period size: 34 Copynumber: 3.3 Consensus size: 34
1005133 ATAATGCACT
*
1005143 CATATGCATTATTCATTTATGCTGACAATGTACC
1 CATATACATTATTCATTTATGCTGACAATGTACC
** * *
1005177 CATATACATTTCAGCTATGGCATCCTTTCATGCCAATAATGCACC
1 CATATACA-TT-A--T-T--CA---TTT-ATGCTGACAATGTACC
* *
1005222 CATATGCATTATTCTTTTATGCTGACAATGTACC
1 CATATACATTATTCATTTATGCTGACAATGTACC
1005256 CATATACATT
1 CATATACATT
1005266 TAAGCTATGG
Statistics
Matches: 66, Mismatches: 12, Indels: 22
0.66 0.12 0.22
Matches are distributed among these distances:
34 28 0.42
35 5 0.08
36 1 0.02
38 2 0.03
39 1 0.02
40 1 0.02
41 3 0.05
43 1 0.02
44 5 0.08
45 19 0.29
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.37
Consensus pattern (34 bp):
CATATACATTATTCATTTATGCTGACAATGTACC
Found at i:1005839 original size:20 final size:20
Alignment explanation
Indices: 1005814--1005887 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
1005804 CGATGTTGCC
* *
1005814 TGGTATCGGTACCCTTACCA
1 TGGTATCGATACCCTTACAA
*
1005834 TGGTATCGATACTATCC-TACTA
1 TGGTATCGATAC---CCTTACAA
*
1005856 TGGTACCGATACCCTTACAA
1 TGGTATCGATACCCTTACAA
1005876 TGGTATCGATAC
1 TGGTATCGATAC
1005888 TACCCCAATA
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
19 2 0.04
20 26 0.58
22 15 0.33
23 2 0.04
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.31
Consensus pattern (20 bp):
TGGTATCGATACCCTTACAA
Found at i:1008815 original size:20 final size:20
Alignment explanation
Indices: 1008771--1009003 Score: 195
Period size: 20 Copynumber: 11.6 Consensus size: 20
1008761 AATTCTGACT
*
1008771 ATCGCAACGAGTATCCGTAAA
1 ATCGCAACGCGTATCCGT-AA
*
1008792 ATCACAACGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* * *
1008812 ATCACAACG-ATAATACGTAAA
1 ATCGCAACGCGT-ATCCGT-AA
*
1008833 ATCGCAATGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* * *
1008853 ATCGCAACGAGAATACGTAA
1 ATCGCAACGCGTATCCGTAA
* **
1008873 ATTGCAACGCGTATCTATAA
1 ATCGCAACGCGTATCCGTAA
* * *
1008893 ATCGCAACGAGAATACGTAA
1 ATCGCAACGCGTATCCGTAA
* *
1008913 ATCGCAATGTGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
** *
1008933 ATCGCAAC-CACAATACGTAAA
1 ATCGCAACGC-GTATCCGT-AA
1008954 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
1008974 ATCGCAACGCG-AT-CGATAA
1 ATCGCAACGCGTATCCG-TAA
*
1008993 TTCGCAACGCG
1 ATCGCAACGCG
1009004 ATCTCCGGTA
Statistics
Matches: 168, Mismatches: 37, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
18 2 0.01
19 16 0.10
20 103 0.61
21 45 0.27
22 2 0.01
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGTATCCGTAA
Found at i:1008896 original size:40 final size:41
Alignment explanation
Indices: 1008771--1008982 Score: 293
Period size: 41 Copynumber: 5.2 Consensus size: 41
1008761 AATTCTGACT
* * *
1008771 ATCGCAACGAGTATCCGTAAAATCACAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* * *
1008812 ATCACAACGATAATACGTAAAATCGCAATGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* **
1008853 ATCGCAACGAGAATACGT-AAATTGCAACGCGTATCTATAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* *
1008893 ATCGCAACGAGAATACGT-AAATCGCAATGTGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* *
1008933 ATCGCAACCACAATACGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
1008974 ATCGCAACG
1 ATCGCAACG
1008983 CGATCGATAA
Statistics
Matches: 148, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
40 69 0.47
41 79 0.53
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.20
Consensus pattern (41 bp):
ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
Found at i:1009121 original size:20 final size:20
Alignment explanation
Indices: 1009096--1009241 Score: 217
Period size: 20 Copynumber: 7.3 Consensus size: 20
1009086 TTTTCCTAAT
*
1009096 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
*
1009116 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
1009136 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
1009156 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
1009176 TCGCAATGCGAAT-CTGTAAA
1 TCGCAATGCGAATAC-GTAAA
*
1009196 TCACAATGCGAAT-CTGTAAA
1 TCGCAATGCGAATAC-GTAAA
1009216 TCGCAATGCGAAT-CTGTAAA
1 TCGCAATGCGAATAC-GTAAA
1009236 TCGCAA
1 TCGCAA
1009242 CGAGATTCTA
Statistics
Matches: 122, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
19 1 0.01
20 121 0.99
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:1009259 original size:40 final size:39
Alignment explanation
Indices: 1009096--1009262 Score: 175
Period size: 40 Copynumber: 4.2 Consensus size: 39
1009086 TTTTCCTAAT
*
1009096 TCGCAATGCGATTACGTAAATCGCAATGCG-ATTACGTAAA
1 TCGCAATGCGAATACGTAAATCGCAA-GCGAATT-CGTAAA
*
1009136 TCGCAATGCGAATACGTAAATCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAATCGCAA-GCGAATTCGTAAA
*
1009176 TCGCAATGCGAAT-CTGTAAATCACAATGCGAA-TCTGTAAA
1 TCGCAATGCGAATAC-GTAAATCGCAA-GCGAATTC-GTAAA
1009216 TCGCAATGCGAAT-CTGTAAATCGCAA-CGAGATTC-TAACTA
1 TCGCAATGCGAATAC-GTAAATCGCAAGCGA-ATTCGTAA--A
1009256 TCGCAAT
1 TCGCAAT
1009263 ACTGAATTTC
Statistics
Matches: 115, Mismatches: 5, Indels: 14
0.86 0.04 0.10
Matches are distributed among these distances:
38 6 0.05
39 3 0.03
40 104 0.90
41 2 0.02
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.24
Consensus pattern (39 bp):
TCGCAATGCGAATACGTAAATCGCAAGCGAATTCGTAAA
Found at i:1010080 original size:24 final size:24
Alignment explanation
Indices: 1010053--1010106 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
1010043 GTATTCGAAA
1010053 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
1010077 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
1010101 TTTGAT
1 TTTGAT
1010107 GTTTTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:1012601 original size:20 final size:20
Alignment explanation
Indices: 1012522--1012602 Score: 108
Period size: 20 Copynumber: 4.0 Consensus size: 20
1012512 AAATCACAAC
* *
1012522 GCGAATATGACTATCGCAAC
1 GCGAAAATGACTATCGCAAT
* *
1012542 ACGAAATTGACTATCGCAAT
1 GCGAAAATGACTATCGCAAT
*
1012562 GCGAAATTGACTATCGCAAT
1 GCGAAAATGACTATCGCAAT
*
1012582 GTGAAAATGACTATCGCAAT
1 GCGAAAATGACTATCGCAAT
1012602 G
1 G
1012603 AGAGAATCGC
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 54 1.00
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (20 bp):
GCGAAAATGACTATCGCAAT
Found at i:1012667 original size:34 final size:34
Alignment explanation
Indices: 1012574--1012668 Score: 129
Period size: 33 Copynumber: 2.8 Consensus size: 34
1012564 GAAATTGACT
* ** *
1012574 ATCGCAATGTGAAAATGACTATCGCAATGAGAGA
1 ATCGCAATGCGAAAATGAAAATCGCAACGAGAGA
*
1012608 ATCGCAATGCG-AAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAAATGAAAATCGCAACGAGAGA
*
1012641 ATCGCAATGCGAAAATAAAAATCGCAAC
1 ATCGCAATGCGAAAATGAAAATCGCAAC
1012669 TCGAAATTAG
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
33 29 0.54
34 25 0.46
ACGTcount: A:0.44, C:0.18, G:0.21, T:0.17
Consensus pattern (34 bp):
ATCGCAATGCGAAAATGAAAATCGCAACGAGAGA
Found at i:1012722 original size:34 final size:34
Alignment explanation
Indices: 1012684--1012779 Score: 131
Period size: 33 Copynumber: 2.9 Consensus size: 34
1012674 ATTAGTTTCA
1012684 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
*
1012718 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
* ** * *
1012751 CATTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
1012780 AGTCTGTTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
33 29 0.53
34 26 0.47
ACGTcount: A:0.15, C:0.24, G:0.20, T:0.42
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
Found at i:1012900 original size:14 final size:14
Alignment explanation
Indices: 1012881--1012917 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1012871 CATCAATTAA
1012881 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
1012895 ACAAATCATCTTTT
1 ACAAATCAACATTT
1012909 ACAAATCAA
1 ACAAATCAA
1012918 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:1014365 original size:42 final size:42
Alignment explanation
Indices: 1014260--1014369 Score: 132
Period size: 42 Copynumber: 2.6 Consensus size: 42
1014250 TAGAATGTTG
* * * * *
1014260 GGAGGGACCTCTTCAACGATGACAGTGGCCTCTTGAACGGTA
1 GGAGGGGCCTCTTGAACGATGATAGGGGCCTCTTGAACGATA
* **
1014302 GGAGGGGGCTCTTGAGGGATGATAGGGGCCTCTTGAACGATA
1 GGAGGGGCCTCTTGAACGATGATAGGGGCCTCTTGAACGATA
1014344 GG-GGAGGCCTCTTGAACGATGATAGG
1 GGAGG-GGCCTCTTGAACGATGATAGG
1014370 TGAGTCGGGC
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
41 2 0.04
42 54 0.96
ACGTcount: A:0.23, C:0.18, G:0.38, T:0.21
Consensus pattern (42 bp):
GGAGGGGCCTCTTGAACGATGATAGGGGCCTCTTGAACGATA
Found at i:1014872 original size:20 final size:20
Alignment explanation
Indices: 1014849--1014931 Score: 114
Period size: 20 Copynumber: 4.2 Consensus size: 20
1014839 GAAACTTAAA
1014849 ATCGCAACT-CGAAAATGACT
1 ATCGCAA-TGCGAAAATGACT
1014869 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
* *
1014889 ATCGCAATGCGAAACTCACT
1 ATCGCAATGCGAAAATGACT
**
1014909 ATCGCAATGCGAATTTGACT
1 ATCGCAATGCGAAAATGACT
1014929 ATC
1 ATC
1014932 ACAACGAGAG
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
19 1 0.02
20 56 0.98
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:1014994 original size:19 final size:18
Alignment explanation
Indices: 1014970--1015045 Score: 64
Period size: 19 Copynumber: 4.1 Consensus size: 18
1014960 AAATCGTAAC
*
1014970 GCGATTATAGTTTCGCGTT
1 GCGATTTTA-TTTCGCGTT
* * *
1014989 GCGATTTTGGTTTCTCATT
1 GCGATTTT-ATTTCGCGTT
*
1015008 GCGATTTTCATTTCTCGTT
1 GCGATTTT-ATTTCGCGTT
*
1015027 GCGA-TTCATTTCGCGTT
1 GCGATTTTATTTCGCGTT
1015044 GC
1 GC
1015046 AATAGTCATT
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
17 11 0.23
18 2 0.04
19 34 0.72
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.46
Consensus pattern (18 bp):
GCGATTTTATTTCGCGTT
Found at i:1015306 original size:94 final size:94
Alignment explanation
Indices: 1015137--1015516 Score: 611
Period size: 94 Copynumber: 4.1 Consensus size: 94
1015127 ATGGATTGCA
* * *
1015137 TTACTTT-AACCAAAAGACAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATATACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1015201 TTAGCAGAATTGGCAGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
1015230 TTACTTTCAACCAAAAGATAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
1015295 TTAGCATAATTGGCAGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
1015324 TTACTTTCAACCAAAAGACAAAACAAAGACAAATAATAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* *
1015389 TTAGCAGAATTGGCAGCAACCAAATAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
* *
1015418 TTAC-TTCAACCAAAAGACAAAGCAAAAGACAAATACTAACTTCACAGTGTTAAAGAATAAACAG
1 TTACTTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAG
* * * *
1015482 TTTAGCAGTATTGGTAGCAACCGAATATAT
65 TTTAGCAGAATTGGCAGCAACCGAACAAAT
1015512 TTACT
1 TTACT
1015517 AAGCAATCTA
Statistics
Matches: 267, Mismatches: 17, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
93 25 0.09
94 242 0.91
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.23
Consensus pattern (94 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
TTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:1017235 original size:20 final size:20
Alignment explanation
Indices: 1017212--1017263 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
1017202 ATGAAAATCA
1017212 CAACGAGAGAATGACTATCG
1 CAACGAGAGAATGACTATCG
1017232 CAACTCG-GA-AATGACTATCG
1 CAA--CGAGAGAATGACTATCG
1017252 CAACGAGAGAAT
1 CAACGAGAGAAT
1017264 CGCAACGTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
18 2 0.07
19 2 0.07
20 20 0.71
21 2 0.07
22 2 0.07
ACGTcount: A:0.40, C:0.21, G:0.23, T:0.15
Consensus pattern (20 bp):
CAACGAGAGAATGACTATCG
Found at i:1017285 original size:19 final size:19
Alignment explanation
Indices: 1017261--1017325 Score: 112
Period size: 19 Copynumber: 3.4 Consensus size: 19
1017251 GCAACGAGAG
1017261 AATCGCAACGTGAAATGAA
1 AATCGCAACGTGAAATGAA
* *
1017280 AATCGCAACGAGAAATTAA
1 AATCGCAACGTGAAATGAA
1017299 AATCGCAACGTGAAATGAA
1 AATCGCAACGTGAAATGAA
1017318 AATCGCAA
1 AATCGCAA
1017326 TGCGATTTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 42 1.00
ACGTcount: A:0.49, C:0.17, G:0.18, T:0.15
Consensus pattern (19 bp):
AATCGCAACGTGAAATGAA
Found at i:1017285 original size:33 final size:34
Alignment explanation
Indices: 1017198--1017325 Score: 107
Period size: 38 Copynumber: 3.5 Consensus size: 34
1017188 GTCTTTTGGT
*
1017198 TGAAATGAAAATCACAACGAGAGAATGACTATCGCAAC-
1 TGAAATGAAAATCGCAACGAGA-AA--A--ATCGCAACG
** *
1017236 TCGGAAATGACTATCGCAACGAG-AGAATCGCAACG
1 T--GAAATGAAAATCGCAACGAGAAAAATCGCAACG
1017271 TGAAATGAAAATCGCAACGAGAAATTAAAATCGCAACG
1 TGAAATGAAAATCGCAACGAG--A--AAAATCGCAACG
1017309 TGAAATGAAAATCGCAA
1 TGAAATGAAAATCGCAA
1017326 TGCGATTTTG
Statistics
Matches: 75, Mismatches: 7, Indels: 16
0.77 0.07 0.16
Matches are distributed among these distances:
33 18 0.24
34 8 0.11
35 1 0.01
36 1 0.01
38 30 0.40
40 17 0.23
ACGTcount: A:0.46, C:0.18, G:0.20, T:0.16
Consensus pattern (34 bp):
TGAAATGAAAATCGCAACGAGAAAAATCGCAACG
Found at i:1017445 original size:20 final size:20
Alignment explanation
Indices: 1017358--1017447 Score: 85
Period size: 20 Copynumber: 4.5 Consensus size: 20
1017348 GATTATCTCA
*
1017358 TTGCGATTTTCA-TTTCGCG
1 TTGCGATTTTCATTTTCGTG
* *
1017377 TTGCAATTTTAATTTCTC-TCG
1 TTGCGATTTTCATTT-TCGT-G
** *
1017398 TTGCGATAGTCATTTTTGTG
1 TTGCGATTTTCATTTTCGTG
*
1017418 TTGCGATTTTCATTTTCATG
1 TTGCGATTTTCATTTTCGTG
1017438 TTGCGATTTT
1 TTGCGATTTT
1017448 AAGTTTAGAA
Statistics
Matches: 55, Mismatches: 12, Indels: 7
0.74 0.16 0.09
Matches are distributed among these distances:
19 10 0.18
20 30 0.55
21 15 0.27
ACGTcount: A:0.14, C:0.16, G:0.18, T:0.52
Consensus pattern (20 bp):
TTGCGATTTTCATTTTCGTG
Found at i:1018037 original size:20 final size:20
Alignment explanation
Indices: 1018008--1018218 Score: 228
Period size: 20 Copynumber: 10.4 Consensus size: 20
1017998 TAAAAATCGT
* *
1018008 GTTGCAATTTATGGATACGC
1 GTTGCGATTTACGGATACGC
* *
1018028 GTTGCGATTTTACGTAT-TGTC
1 GTTGCGA-TTTACGGATACG-C
1018049 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* * * *
1018069 ATTGCGATTTACGTATTCTC
1 GTTGCGATTTACGGATACGC
*
1018089 GTTGCGATTTACAGATACGC
1 GTTGCGATTTACGGATACGC
* * *
1018109 GTTGCGATTTACGTATTCAC
1 GTTGCGATTTACGGATACGC
1018129 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
1018149 GTTGCGATTTTACGTAT-TGTC
1 GTTGCGA-TTTACGGATACG-C
1018170 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
1018190 GTTGCGATTTTACGGATACTC
1 GTTGCGA-TTTACGGATACGC
1018211 GTTGCGAT
1 GTTGCGAT
1018219 AGTCAGAATC
Statistics
Matches: 157, Mismatches: 27, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
20 105 0.67
21 52 0.33
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:1018240 original size:41 final size:41
Alignment explanation
Indices: 1018008--1018218 Score: 327
Period size: 41 Copynumber: 5.2 Consensus size: 41
1017998 TAAAAATCGT
* * *
1018008 GTTGCAATTTATGGATACGCGTTGCGATTTTACGTATTGTC
1 GTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTC
*
1018049 GTTGCGATTTACGGATACGCATTGCGA-TTTACGTATTCTC
1 GTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTC
* *
1018089 GTTGCGATTTACAGATACGCGTTGCGA-TTTACGTATTCAC
1 GTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTC
*
1018129 GTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTC
1 GTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTC
* *
1018170 GTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACTC
1 GTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTC
1018211 GTTGCGAT
1 GTTGCGAT
1018219 AGTCAGAATC
Statistics
Matches: 156, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
40 75 0.48
41 81 0.52
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.37
Consensus pattern (41 bp):
GTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTC
Found at i:1018269 original size:20 final size:20
Alignment explanation
Indices: 1018227--1018269 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
1018217 ATAGTCAGAA
* *
1018227 TCGCGTTGCGATTTATATGT
1 TCGCGTTGCAATTTATATAT
1018247 TCGCGTTGCAATTT-TCATAT
1 TCGCGTTGCAATTTAT-ATAT
1018267 TCG
1 TCG
1018270 TGTTACGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 19 0.95
ACGTcount: A:0.16, C:0.19, G:0.21, T:0.44
Consensus pattern (20 bp):
TCGCGTTGCAATTTATATAT
Found at i:1018378 original size:20 final size:19
Alignment explanation
Indices: 1018329--1018382 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
1018319 ATTCTTCATA
1018329 ATCGCGTTGCGATTCTGGG
1 ATCGCGTTGCGATTCTGGG
* **
1018348 AACTGATTTGCGATTCTGGAG
1 ATC-GCGTTGCGATTCTGG-G
1018369 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
1018383 TTTATTTCGC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.17, C:0.19, G:0.31, T:0.33
Consensus pattern (19 bp):
ATCGCGTTGCGATTCTGGG
Found at i:1021714 original size:20 final size:20
Alignment explanation
Indices: 1021689--1021804 Score: 83
Period size: 20 Copynumber: 5.8 Consensus size: 20
1021679 GGAAAGAGTA
*
1021689 TCCATACTTTGGTAAACTTT
1 TCCATACTTTGGTAAACGTT
* * *
1021709 TTCATATTTTGGCAAGA-GTT
1 TCCATACTTTGGTAA-ACGTT
*
1021729 TCCATACTTTGGTAAACTTT
1 TCCATACTTTGGTAAACGTT
* * * *
1021749 TTCATATTTTAGCAAGA-GTT
1 TCCATACTTTGGTAA-ACGTT
* *
1021769 TCCATACTTTGGTAAAAGTA
1 TCCATACTTTGGTAAACGTT
* *
1021789 TCCCTATTTTGGTAAA
1 TCCATACTTTGGTAAA
1021805 ACTTTTTATA
Statistics
Matches: 72, Mismatches: 20, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
19 2 0.03
20 68 0.94
21 2 0.03
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.43
Consensus pattern (20 bp):
TCCATACTTTGGTAAACGTT
Found at i:1021798 original size:40 final size:40
Alignment explanation
Indices: 1021682--1021784 Score: 188
Period size: 40 Copynumber: 2.6 Consensus size: 40
1021672 ATACTAGGGA
* *
1021682 AAGAGTATCCATACTTTGGTAAACTTTTTCATATTTTGGC
1 AAGAGTTTCCATACTTTGGTAAACTTTTTCATATTTTAGC
1021722 AAGAGTTTCCATACTTTGGTAAACTTTTTCATATTTTAGC
1 AAGAGTTTCCATACTTTGGTAAACTTTTTCATATTTTAGC
1021762 AAGAGTTTCCATACTTTGGTAAA
1 AAGAGTTTCCATACTTTGGTAAA
1021785 AGTATCCCTA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 61 1.00
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.42
Consensus pattern (40 bp):
AAGAGTTTCCATACTTTGGTAAACTTTTTCATATTTTAGC
Found at i:1021819 original size:20 final size:20
Alignment explanation
Indices: 1021689--1021820 Score: 79
Period size: 20 Copynumber: 6.6 Consensus size: 20
1021679 GGAAAGAGTA
1021689 TCCATACTTTGGT-AAACTTT
1 TCCATACTTTGGTAAAAC-TT
* * * * *
1021709 TTCATATTTTGGCAAGAGTT
1 TCCATACTTTGGTAAAACTT
1021729 TCCATACTTTGGT-AAACTTT
1 TCCATACTTTGGTAAAAC-TT
* * * * * *
1021749 TTCATATTTTAGCAAGAGTT
1 TCCATACTTTGGTAAAACTT
* *
1021769 TCCATACTTTGGTAAAAGTA
1 TCCATACTTTGGTAAAACTT
* *
1021789 TCCCTATTTTGGTAAAACTT
1 TCCATACTTTGGTAAAACTT
**
1021809 TTTATACTTTGG
1 TCCATACTTTGG
1021821 AAAGAGTTGC
Statistics
Matches: 79, Mismatches: 30, Indels: 6
0.69 0.26 0.05
Matches are distributed among these distances:
19 2 0.03
20 73 0.92
21 4 0.05
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.45
Consensus pattern (20 bp):
TCCATACTTTGGTAAAACTT
Found at i:1028384 original size:32 final size:31
Alignment explanation
Indices: 1028343--1028402 Score: 93
Period size: 32 Copynumber: 1.9 Consensus size: 31
1028333 TTGGAAAATT
1028343 TTAGGGACCAAAAGGGTAATTTTTAAAAACAA
1 TTAGGGACCAAAAGGGT-ATTTTTAAAAACAA
* *
1028375 TTAGGGACCAAAAGTGTATTTTTCAAAA
1 TTAGGGACCAAAAGGGTATTTTTAAAAA
1028403 TTTAGGTGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 10 0.38
32 16 0.62
ACGTcount: A:0.43, C:0.10, G:0.18, T:0.28
Consensus pattern (31 bp):
TTAGGGACCAAAAGGGTATTTTTAAAAACAA
Found at i:1031494 original size:13 final size:12
Alignment explanation
Indices: 1031465--1031509 Score: 54
Period size: 13 Copynumber: 3.6 Consensus size: 12
1031455 AAACAAAATG
*
1031465 TGAAAGTGAGTA
1 TGAAAGTGAATA
1031477 TGAAAGTGAATGA
1 TGAAAGTGAAT-A
*
1031490 TGAAAATGAGATA
1 TGAAAGTGA-ATA
1031503 TGAAAGT
1 TGAAAGT
1031510 TTTGTATTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
12 10 0.36
13 16 0.57
14 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.29, T:0.24
Consensus pattern (12 bp):
TGAAAGTGAATA
Found at i:1031509 original size:26 final size:24
Alignment explanation
Indices: 1031461--1031509 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
1031451 ATTAAAACAA
*
1031461 AATGTGAAAGTGAGTATGAAAGTG
1 AATGTGAAAATGAGTATGAAAGTG
1031485 AATGATGAAAATGAGATATGAAAGT
1 AATG-TGAAAATGAG-TATGAAAGT
1031510 TTTGTATTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.18
25 9 0.41
26 9 0.41
ACGTcount: A:0.47, C:0.00, G:0.29, T:0.24
Consensus pattern (24 bp):
AATGTGAAAATGAGTATGAAAGTG
Found at i:1031560 original size:18 final size:18
Alignment explanation
Indices: 1031537--1031601 Score: 67
Period size: 18 Copynumber: 3.4 Consensus size: 18
1031527 TGAAAAAGAA
*
1031537 TATGATATGACTATTATG
1 TATGATATGACTATCATG
**
1031555 TATGATACTGTTTATCATGG
1 TATGATA-TGACTATCAT-G
*
1031575 CTTTGATATGACTATCATG
1 -TATGATATGACTATCATG
1031594 TATGATAT
1 TATGATAT
1031602 TGTTTATCAT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
18 14 0.38
19 8 0.22
20 9 0.24
21 6 0.16
ACGTcount: A:0.29, C:0.09, G:0.17, T:0.45
Consensus pattern (18 bp):
TATGATATGACTATCATG
Found at i:1031587 original size:39 final size:39
Alignment explanation
Indices: 1031539--1031621 Score: 139
Period size: 39 Copynumber: 2.1 Consensus size: 39
1031529 AAAAAGAATA
*
1031539 TGATATGACTATTATGTATGATACTGTTTATCATGGCTT
1 TGATATGACTATCATGTATGATACTGTTTATCATGGCTT
* *
1031578 TGATATGACTATCATGTATGATATTGTTTATCATGGTTT
1 TGATATGACTATCATGTATGATACTGTTTATCATGGCTT
1031617 TGATA
1 TGATA
1031622 AAATCATGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.27, C:0.08, G:0.18, T:0.47
Consensus pattern (39 bp):
TGATATGACTATCATGTATGATACTGTTTATCATGGCTT
Found at i:1031611 original size:19 final size:18
Alignment explanation
Indices: 1031537--1031612 Score: 62
Period size: 19 Copynumber: 4.0 Consensus size: 18
1031527 TGAAAAAGAA
** *
1031537 TATGATATGACTATTATG
1 TATGATATGTTTATCATG
1031555 TATGATACTGTTTATCATGG
1 TATGATA-TGTTTATCAT-G
* **
1031575 CTTTGATATGACTATCATG
1 -TATGATATGTTTATCATG
1031594 TATGATATTGTTTATCATG
1 TATGATA-TGTTTATCATG
1031613 GTTTTGATAA
Statistics
Matches: 45, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
18 13 0.29
19 17 0.38
20 9 0.20
21 6 0.13
ACGTcount: A:0.28, C:0.09, G:0.17, T:0.46
Consensus pattern (18 bp):
TATGATATGTTTATCATG
Found at i:1033889 original size:7 final size:7
Alignment explanation
Indices: 1033879--1033903 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
1033869 ATAGTTTATA
1033879 AAACCCT
1 AAACCCT
1033886 AAACCCT
1 AAACCCT
1033893 AAACCCT
1 AAACCCT
1033900 AAAC
1 AAAC
1033904 TTTTATAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.40, G:0.00, T:0.12
Consensus pattern (7 bp):
AAACCCT
Found at i:1034101 original size:13 final size:13
Alignment explanation
Indices: 1034083--1034125 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
1034073 CTATGTATAG
1034083 TATATATAAACTA
1 TATATATAAACTA
**
1034096 TATATATAATGTA
1 TATATATAAACTA
*
1034109 TATATATAAACCA
1 TATATATAAACTA
1034122 TATA
1 TATA
1034126 AAGTAAATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.40
Consensus pattern (13 bp):
TATATATAAACTA
Found at i:1034110 original size:20 final size:20
Alignment explanation
Indices: 1034064--1034110 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
1034054 TAGTACATGC
*
1034064 ATGTATAAACTATGTATAGT
1 ATGTATAAACTATATATAGT
*
1034084 ATATATAAACTATATATA-T
1 ATGTATAAACTATATATAGT
1034103 AATGTATA
1 -ATGTATA
1034111 TATATAAACC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 1 0.04
20 22 0.96
ACGTcount: A:0.47, C:0.04, G:0.09, T:0.40
Consensus pattern (20 bp):
ATGTATAAACTATATATAGT
Found at i:1034757 original size:23 final size:23
Alignment explanation
Indices: 1034727--1034787 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
1034717 CTCGTATAAA
1034727 TGCACCGAAGTGCCACATAGAAT
1 TGCACCGAAGTGCCACATAGAAT
* *
1034750 TGCACCGAAGTGTCGCATAGAAT
1 TGCACCGAAGTGCCACATAGAAT
* *
1034773 TGCATCGTAGTGCCA
1 TGCACCGAAGTGCCA
1034788 TATAAGATGT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.21
Consensus pattern (23 bp):
TGCACCGAAGTGCCACATAGAAT
Found at i:1041982 original size:19 final size:20
Alignment explanation
Indices: 1041954--1041991 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
1041944 AAAATCCCAT
1041954 AAAAATATAAATAAAATAAC
1 AAAAATATAAATAAAATAAC
*
1041974 AAAAA-ATAAATAACATAA
1 AAAAATATAAATAAAATAA
1041992 AGTCTAGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.18
Consensus pattern (20 bp):
AAAAATATAAATAAAATAAC
Found at i:1043631 original size:20 final size:21
Alignment explanation
Indices: 1043606--1043645 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1043596 GCTTGTTGAA
1043606 TTCAGCTC-ACCTTAGCTCCG
1 TTCAGCTCAACCTTAGCTCCG
*
1043626 TTCAGCTCAACTTTAGCTCC
1 TTCAGCTCAACCTTAGCTCC
1043646 ACCAGCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.17, C:0.38, G:0.12, T:0.33
Consensus pattern (21 bp):
TTCAGCTCAACCTTAGCTCCG
Found at i:1044964 original size:29 final size:29
Alignment explanation
Indices: 1044922--1044988 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
1044912 CTGAACCCTT
* * * *
1044922 GACCTGACGCGACCCGAACTGTTTGACCC
1 GACCCGACCCGACCCAAACTATTTGACCC
*
1044951 GACCCGACCCGACCCAAACTATTTGACCT
1 GACCCGACCCGACCCAAACTATTTGACCC
1044980 GACCCGACC
1 GACCCGACC
1044989 GACTCGTTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.24, C:0.42, G:0.19, T:0.15
Consensus pattern (29 bp):
GACCCGACCCGACCCAAACTATTTGACCC
Found at i:1063236 original size:23 final size:24
Alignment explanation
Indices: 1063210--1063260 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
1063200 ATAAAACCCT
*
1063210 AAAAATAC-TAAAGATAAATCCTA
1 AAAAATACAAAAAGATAAATCCTA
*
1063233 AAAAATACAAAAAGATAATTCCTA
1 AAAAATACAAAAAGATAAATCCTA
1063257 AAAA
1 AAAA
1063261 TTATTTGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 8 0.32
24 17 0.68
ACGTcount: A:0.65, C:0.12, G:0.04, T:0.20
Consensus pattern (24 bp):
AAAAATACAAAAAGATAAATCCTA
Found at i:1063261 original size:23 final size:22
Alignment explanation
Indices: 1063207--1063261 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 22
1063197 ATCATAAAAC
*
1063207 CCTAAAAATACTAAAGATAAAT
1 CCTAAAAATACAAAAGATAAAT
*
1063229 CCTAAAAAATACAAAAAGATAATT
1 CCT-AAAAATAC-AAAAGATAAAT
1063253 CCTAAAAAT
1 CCTAAAAAT
1063262 TATTTGAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 3 0.10
23 14 0.48
24 12 0.41
ACGTcount: A:0.60, C:0.15, G:0.04, T:0.22
Consensus pattern (22 bp):
CCTAAAAATACAAAAGATAAAT
Found at i:1064168 original size:4 final size:4
Alignment explanation
Indices: 1064159--1064185 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
1064149 ATTGTATTGT
1064159 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1064186 TACTATTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:1067353 original size:21 final size:21
Alignment explanation
Indices: 1067328--1067367 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1067318 AAGACTCTAT
1067328 TTTCAAAATACAAAAATGATA
1 TTTCAAAATACAAAAATGATA
**
1067349 TTTCAAAATTGAAAAATGA
1 TTTCAAAATACAAAAATGA
1067368 AAATAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.30
Consensus pattern (21 bp):
TTTCAAAATACAAAAATGATA
Found at i:1076466 original size:32 final size:32
Alignment explanation
Indices: 1076430--1076511 Score: 103
Period size: 32 Copynumber: 2.6 Consensus size: 32
1076420 GCGACCTTTG
* *
1076430 GGTAGGCTCTGAGGCCCCGAGAATCTTTCTTA
1 GGTAGGCTCTAAGGCCCCGAGAAACTTTCTTA
* * *
1076462 GGTAGGCTTTAAGGCCTCGAGAAACTTTCTTG
1 GGTAGGCTCTAAGGCCCCGAGAAACTTTCTTA
1076494 GGTAGGCTCTCAA-GCCCC
1 GGTAGGCTCT-AAGGCCCC
1076512 AAGGCACTCC
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
32 40 0.95
33 2 0.05
ACGTcount: A:0.20, C:0.26, G:0.28, T:0.27
Consensus pattern (32 bp):
GGTAGGCTCTAAGGCCCCGAGAAACTTTCTTA
Found at i:1088856 original size:12 final size:13
Alignment explanation
Indices: 1088839--1088871 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
1088829 TTGGGCAAAA
*
1088839 TTTGAAAACTAT-
1 TTTGAAAACAATG
1088851 TTTGAAAACAATG
1 TTTGAAAACAATG
1088864 TTTGAAAA
1 TTTGAAAA
1088872 ACCATAATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.36
Consensus pattern (13 bp):
TTTGAAAACAATG
Found at i:1091482 original size:12 final size:12
Alignment explanation
Indices: 1091465--1091489 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1091455 ATGATGGTTC
1091465 TCCAACGTCATG
1 TCCAACGTCATG
1091477 TCCAACGTCATG
1 TCCAACGTCATG
1091489 T
1 T
1091490 GTATTTATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.32, G:0.16, T:0.28
Consensus pattern (12 bp):
TCCAACGTCATG
Found at i:1101722 original size:46 final size:46
Alignment explanation
Indices: 1101664--1101768 Score: 149
Period size: 46 Copynumber: 2.3 Consensus size: 46
1101654 TAAAATGAAT
* *
1101664 CCATAAATGAAATGCATAAAATGATGCATTAAGG-ATTGAAAGGATG
1 CCATAAATGAAATGCATAAAAGGATGCATTAAGGCA-TGAAAAGATG
* *
1101710 CCATGAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAAGATG
1 CCATAAATGAAATGCATAAAAGGATGCATTAAGGCATGAAAAGATG
*
1101756 CCATTAATGAAAT
1 CCATAAATGAAAT
1101769 TAATGAATAA
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
46 52 0.98
47 1 0.02
ACGTcount: A:0.45, C:0.10, G:0.22, T:0.23
Consensus pattern (46 bp):
CCATAAATGAAATGCATAAAAGGATGCATTAAGGCATGAAAAGATG
Found at i:1101748 original size:20 final size:21
Alignment explanation
Indices: 1101723--1101762 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
1101713 TGAATGAAAT
*
1101723 GCATGAAAGGATG-CATTAAG
1 GCATGAAAAGATGCCATTAAG
1101743 GCATGAAAAGATGCCATTAA
1 GCATGAAAAGATGCCATTAA
1101763 TGAAATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.42, C:0.12, G:0.25, T:0.20
Consensus pattern (21 bp):
GCATGAAAAGATGCCATTAAG
Found at i:1104252 original size:26 final size:26
Alignment explanation
Indices: 1104189--1104260 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 26
1104179 TTATTCGTTA
1104189 ATTTCATTTATGGCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGC
1104215 A-TT-A---AT-GCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGC
1104235 ATTTCATTTATGGCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGC
1104261 CTTAATTTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
20 15 0.38
21 4 0.10
22 1 0.03
24 1 0.03
25 4 0.10
26 15 0.38
ACGTcount: A:0.21, C:0.24, G:0.11, T:0.44
Consensus pattern (26 bp):
ATTTCATTTATGGCATCCTTTCATGC
Found at i:1104344 original size:45 final size:45
Alignment explanation
Indices: 1104293--1104518 Score: 353
Period size: 45 Copynumber: 5.0 Consensus size: 45
1104283 TTTTTAGTTA
* * * **
1104293 TGGCATCCTTTTATACCAATAATGCATTCATATGCATTATTATTT
1 TGGCATCCTTTCATGCCGATAATGCACCCATATGCATTATTATTT
* *
1104338 TGGCATCATTTCTTGCCGATAATGCACCCATATGCATTATTATTT
1 TGGCATCCTTTCATGCCGATAATGCACCCATATGCATTATTATTT
*
1104383 TGGCATCCTTTCATGCCGATAATGCACCCATATTCATTATTATTT
1 TGGCATCCTTTCATGCCGATAATGCACCCATATGCATTATTATTT
*
1104428 TGGCATCCTTTCATGCCTATAATGCACCCATATGCATTATTATTT
1 TGGCATCCTTTCATGCCGATAATGCACCCATATGCATTATTATTT
* *
1104473 TGGCATCCTTTCATACCGACAATGCACCCATATGCATTATTATTT
1 TGGCATCCTTTCATGCCGATAATGCACCCATATGCATTATTATTT
1104518 T
1 T
1104519 ATTCATTCGT
Statistics
Matches: 166, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 166 1.00
ACGTcount: A:0.26, C:0.23, G:0.11, T:0.40
Consensus pattern (45 bp):
TGGCATCCTTTCATGCCGATAATGCACCCATATGCATTATTATTT
Found at i:1105115 original size:95 final size:95
Alignment explanation
Indices: 1104940--1105119 Score: 213
Period size: 95 Copynumber: 1.9 Consensus size: 95
1104930 TACTACTCTG
* * * * *
1104940 GTATCGATACTTCTACACTATGGTACTGATACCCCTTTTCGATATCGATACCATTTCTATATTAT
1 GTATCGATACTACTACACTATGGTACCGATACCCCTTTTAGATATCGATAACATTTCTACATTAT
* * *
1105005 GTGTTGCATGTTATCGATACCCTTCTTTCA
66 GTGATCCATGGTATCGATACCCTTCTTTCA
* *
1105035 GTATCGATACTACTATACTATGGTACCGATACTCCATTTTTAG-TATCGATAACATTT-TGACAT
1 GTATCGATACTACTACACTATGGTACCGATAC-CC-CTTTTAGATATCGATAACATTTCT-ACAT
*
1105098 TCTG-GATCCATGGTATCGATAC
63 TATGTGATCCATGGTATCGATAC
1105120 TTCCCTTTGT
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
95 45 0.63
96 21 0.30
97 5 0.07
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.39
Consensus pattern (95 bp):
GTATCGATACTACTACACTATGGTACCGATACCCCTTTTAGATATCGATAACATTTCTACATTAT
GTGATCCATGGTATCGATACCCTTCTTTCA
Found at i:1109271 original size:81 final size:82
Alignment explanation
Indices: 1109161--1109312 Score: 189
Period size: 81 Copynumber: 1.9 Consensus size: 82
1109151 CCCAAAGGCC
* * * ** * * *
1109161 TTTAGCCTTTCACCTAACTTGCATGATTGACACATTT-TTGCCACCTGCATAGCTAGGTCATTAA
1 TTTAACCTTTCACCTAACTGGCATAATTGACACATTTCTACCCAACTGCATAGCAAGGCCATTAA
1109225 TCTTTTACTCAAATGTA
66 TCTTTTACTCAAATGTA
* * * *
1109242 TTTAACCTTTCATCTAACTGGGATAATTGACACCTTTCTACCCAATTGCATAGCAAGGCCATTAA
1 TTTAACCTTTCACCTAACTGGCATAATTGACACATTTCTACCCAACTGCATAGCAAGGCCATTAA
1109307 TCTTTT
66 TCTTTT
1109313 TCTTTAGAAC
Statistics
Matches: 58, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
81 31 0.53
82 27 0.47
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.38
Consensus pattern (82 bp):
TTTAACCTTTCACCTAACTGGCATAATTGACACATTTCTACCCAACTGCATAGCAAGGCCATTAA
TCTTTTACTCAAATGTA
Found at i:1109709 original size:26 final size:26
Alignment explanation
Indices: 1109642--1109713 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 26
1109632 TTATTCGTTA
1109642 ATTTCATTTATGGCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGC
* *
1109668 ----C-TTAAT-GCACCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGC
1109688 ATTTCATTTATGGCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGC
1109714 CTTAATGTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 12
0.69 0.08 0.23
Matches are distributed among these distances:
20 13 0.36
21 4 0.11
22 1 0.03
24 1 0.03
25 4 0.11
26 13 0.36
ACGTcount: A:0.19, C:0.26, G:0.11, T:0.43
Consensus pattern (26 bp):
ATTTCATTTATGGCATCCTTTCATGC
Found at i:1109820 original size:45 final size:45
Alignment explanation
Indices: 1109751--1110063 Score: 468
Period size: 45 Copynumber: 7.0 Consensus size: 45
1109741 TTAGTTATGG
*
1109751 CATCCTTTCATACCAATAATGCACCCATATGCATTATTATTTTGT
1 CATCCTTTCATGCCAATAATGCACCCATATGCATTATTATTTTGT
* * * *
1109796 CATCATTTCATGCCGATAATGCACCCATGTGAATTATTATTTTAG-
1 CATCCTTTCATGCCAATAATGCACCCATATGCATTATTATTTT-GT
* *
1109841 CATCCTTTCATGCCAAAAATGCACCCATATGCATTATTATTTTGG
1 CATCCTTTCATGCCAATAATGCACCCATATGCATTATTATTTTGT
* * *
1109886 CACCCTTTCATGCCTATAATGCACCCATATACATTATTATTTTGT
1 CATCCTTTCATGCCAATAATGCACCCATATGCATTATTATTTTGT
*
1109931 CATCCTTTCATGCCGATAATGCACCCATATGCATTATTATTTTGAT
1 CATCCTTTCATGCCAATAATGCACCCATATGCATTATTATTTTG-T
* *
1109977 -ATCCTTTCATGCCAATAGTGCACCCATATGCATTATTATTTTGG
1 CATCCTTTCATGCCAATAATGCACCCATATGCATTATTATTTTGT
*
1110021 CATCCTTTCATGCCGATAATGCACCCATATGCATTATTATTTT
1 CATCCTTTCATGCCAATAATGCACCCATATGCATTATTATTTT
1110064 TTTCTTTTAT
Statistics
Matches: 241, Mismatches: 23, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
44 1 0.00
45 238 0.99
46 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.10, T:0.39
Consensus pattern (45 bp):
CATCCTTTCATGCCAATAATGCACCCATATGCATTATTATTTTGT
Found at i:1109909 original size:135 final size:135
Alignment explanation
Indices: 1109748--1110063 Score: 517
Period size: 135 Copynumber: 2.3 Consensus size: 135
1109738 GTTTTAGTTA
*
1109748 TGGCATCCTTTCATACCAATAATGCACCCATATGCATTATTATTTTGTCATCATTTCATGCCGAT
1 TGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTATTTTGTCATCATTTCATGCCGAT
*
1109813 AATGCACCCATGTGAATTATTATTTT-AGCATCCTTTCATGCCAAAAATGCACCCATATGCATTA
66 AATGCACCCATATGAATTATTATTTTGA-CATCCTTTCATGCCAAAAATGCACCCATATGCATTA
1109877 TTATTT
130 TTATTT
* * * *
1109883 TGGCACCCTTTCATGCCTATAATGCACCCATATACATTATTATTTTGTCATCCTTTCATGCCGAT
1 TGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTATTTTGTCATCATTTCATGCCGAT
* * * *
1109948 AATGCACCCATATGCATTATTATTTTGATATCCTTTCATGCCAATAGTGCACCCATATGCATTAT
66 AATGCACCCATATGAATTATTATTTTGACATCCTTTCATGCCAAAAATGCACCCATATGCATTAT
1110013 TATTT
131 TATTT
*
1110018 TGGCATCCTTTCATGCCGATAATGCACCCATATGCATTATTATTTT
1 TGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTATTTT
1110064 TTTCTTTTAT
Statistics
Matches: 167, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
135 166 0.99
136 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.39
Consensus pattern (135 bp):
TGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTATTTTGTCATCATTTCATGCCGAT
AATGCACCCATATGAATTATTATTTTGACATCCTTTCATGCCAAAAATGCACCCATATGCATTAT
TATTT
Found at i:1110689 original size:97 final size:96
Alignment explanation
Indices: 1110487--1110689 Score: 218
Period size: 96 Copynumber: 2.1 Consensus size: 96
1110477 CTACTACTCT
* * * * *
1110487 GTATCGATACTTCTATACTATGGTACTGATACCCCTTTTCGATATCAATACCATATCTATATTTT
1 GTATCGATACTACTATAATATGGTACTGATACCCCTTTTAGATATCAATAACATATCTATATATT
* * * * *
1110552 TTTGTTGCATGGTATCGATACCCTTTTTTCA
66 TTGGATCCATGGTATCAATACCCTTTGTTCA
*
1110583 GTATCGATACTACTATAATATGGTACTGATACTCCCTTTTTAG-TATCGATAACAT-T-T-TGAT
1 GTATCGATACTACTATAATATGGTACTGATAC-CCC-TTTTAGATATCAATAACATATCTAT-AT
1110644 ATTTTGGATCCATGGTATCAATACTTCCCTTTGTT-A
63 ATTTTGGATCCATGGTATCAATA---CCCTTTGTTCA
1110680 GTATCGATAC
1 GTATCGATAC
1110690 CCCTTTAGTA
Statistics
Matches: 90, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
94 1 0.01
95 21 0.23
96 31 0.34
97 24 0.27
98 13 0.14
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42
Consensus pattern (96 bp):
GTATCGATACTACTATAATATGGTACTGATACCCCTTTTAGATATCAATAACATATCTATATATT
TTGGATCCATGGTATCAATACCCTTTGTTCA
Found at i:1112775 original size:2 final size:2
Alignment explanation
Indices: 1112764--1112807 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
1112754 TCACATTAGC
1112764 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1112805 TA T
1 TA T
1112808 TTCTAACATC
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1138594 original size:26 final size:25
Alignment explanation
Indices: 1138511--1138693 Score: 127
Period size: 20 Copynumber: 8.0 Consensus size: 25
1138501 AAAATGAATC
1138511 CATAAATGAAATGCATGAAAGGATG
1 CATAAATGAAATGCATGAAAGGATG
*
1138536 CAT---T--AAGGCATGAAAGGATG
1 CATAAATGAAATGCATGAAAGGATG
* *
1138556 CAT---T--AAGGAATGAAAGGATG
1 CATAAATGAAATGCATGAAAGGATG
1138576 TCATAAATGAAATGCATGAAAGGATG
1 -CATAAATGAAATGCATGAAAGGATG
* *
1138602 CAT---T--AAGGCATAAAAGGATG
1 CATAAATGAAATGCATGAAAGGATG
1138622 TCATAAATGAAATGCATGAAAGGATG
1 -CATAAATGAAATGCATGAAAGGATG
* * *
1138648 CAT---T--TAGGCATGAAAGTATG
1 CATAAATGAAATGCATGAAAGGATG
1138668 CCATAAATGAAATGCATGAAAGGATG
1 -CATAAATGAAATGCATGAAAGGATG
1138694 AATTAAGGTA
Statistics
Matches: 126, Mismatches: 14, Indels: 35
0.72 0.08 0.20
Matches are distributed among these distances:
20 61 0.48
21 9 0.07
22 3 0.02
24 3 0.02
25 9 0.07
26 41 0.33
ACGTcount: A:0.44, C:0.09, G:0.25, T:0.22
Consensus pattern (25 bp):
CATAAATGAAATGCATGAAAGGATG
Found at i:1138595 original size:46 final size:46
Alignment explanation
Indices: 1138543--1138713 Score: 270
Period size: 46 Copynumber: 3.7 Consensus size: 46
1138533 ATGCATTAAG
*
1138543 GCATGAAAGGATGCATTAAGGAATGAAAGGATGTCATAAATGAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGTCATAAATGAAAT
*
1138589 GCATGAAAGGATGCATTAAGGCATAAAAGGATGTCATAAATGAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGTCATAAATGAAAT
* * *
1138635 GCATGAAAGGATGCATTTAGGCATGAAAGTATGCCATAAATGAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGTCATAAATGAAAT
* * *
1138681 GCATGAAAGGATGAATTAAGGTATGAAATGATG
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATG
1138714 CATTAAGGCA
Statistics
Matches: 114, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 114 1.00
ACGTcount: A:0.44, C:0.08, G:0.26, T:0.23
Consensus pattern (46 bp):
GCATGAAAGGATGCATTAAGGCATGAAAGGATGTCATAAATGAAAT
Found at i:1138707 original size:112 final size:112
Alignment explanation
Indices: 1138510--1138825 Score: 411
Period size: 112 Copynumber: 2.8 Consensus size: 112
1138500 TAAAATGAAT
* * * * *
1138510 CCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG-CATTAA-GGAATGAAAGG
1 CCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATGAAATGCATGA
* * * * *
1138573 ATGTCATAAATGAAATGCATGAAAGGATGCATTAAGGCATAAAAGGATG
66 AAG-GATGAAT-TAAGGCATGAAAGGATGCATTAAGGCATAAAAGGATG
* * *
1138622 TCATAAATGAAATGCATGAAAGGATGCATTTAGGCATGAAAGTATGCCATAAATGAAATGCATGA
1 CCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATGAAATGCATGA
* * * *
1138687 AAGGATGAATTAAGGTATGAAATGATGCATTAAGGCATGAAATGATG
66 AAGGATGAATTAAGGCATGAAAGGATGCATTAAGGCATAAAAGGATG
* * *
1138734 CCATAAATGAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGCCATAATTGAAATGCCTGA
1 CCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATGAAATGCATGA
*
1138799 AAGGATGCATTAAGGCATGAAAGGATG
66 AAGGATGAATTAAGGCATGAAAGGATG
1138826 TCATAAATGA
Statistics
Matches: 176, Mismatches: 26, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
112 157 0.89
113 10 0.06
114 9 0.05
ACGTcount: A:0.43, C:0.09, G:0.25, T:0.22
Consensus pattern (112 bp):
CCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATGAAATGCATGA
AAGGATGAATTAAGGCATGAAAGGATGCATTAAGGCATAAAAGGATG
Found at i:1138750 original size:26 final size:25
Alignment explanation
Indices: 1138721--1138990 Score: 140
Period size: 26 Copynumber: 11.6 Consensus size: 25
1138711 ATGCATTAAG
*
1138721 GCATGAAATGATGCCATAAATGAAAT
1 GCATGAAAGGATGCCAT-AATGAAAT
* *
1138747 GCATGAAATGATG-CAT--T--AAG
1 GCATGAAAGGATGCCATAATGAAAT
1138767 GCATGAAAGGATGCCATAATTGAAAT
1 GCATGAAAGGATGCCATAA-TGAAAT
* *
1138793 GCCTGAAAGGATG-CAT--T--AAG
1 GCATGAAAGGATGCCATAATGAAAT
*
1138813 GCATGAAAGGATGTCATAAATGAAAT
1 GCATGAAAGGATGCCAT-AATGAAAT
** *
1138839 GTGTGAAAGGATG-CAT--T--AAG
1 GCATGAAAGGATGCCATAATGAAAT
*
1138859 GCATGAAATGATGCCATAAATGAAAT
1 GCATGAAAGGATGCCAT-AATGAAAT
* * *
1138885 ACGTGAAAGGATG-CAT--T--AAG
1 GCATGAAAGGATGCCATAATGAAAT
* *
1138905 GCATGAAATGATGCCATAAATGAAAG
1 GCATGAAAGGATGCCAT-AATGAAAT
* *
1138931 GCATGAAAGGAT-ACAT--T--AAG
1 GCATGAAAGGATGCCATAATGAAAT
*
1138951 GCATGAAAGGATTCCATAAATGAAAT
1 GCATGAAAGGATGCCAT-AATGAAAT
*
1138977 GCATAAAAGGATGC
1 GCATGAAAGGATGC
1138991 ATTAAGGCAT
Statistics
Matches: 187, Mismatches: 27, Indels: 60
0.68 0.10 0.22
Matches are distributed among these distances:
20 67 0.36
21 15 0.08
22 5 0.03
24 5 0.03
25 15 0.08
26 80 0.43
ACGTcount: A:0.43, C:0.11, G:0.24, T:0.22
Consensus pattern (25 bp):
GCATGAAAGGATGCCATAATGAAAT
Found at i:1138751 original size:92 final size:89
Alignment explanation
Indices: 1138655--1138939 Score: 230
Period size: 92 Copynumber: 3.1 Consensus size: 89
1138645 ATGCATTTAG
* *
1138655 GCATGAAAGTATGCCATAAATGAAATGCATGAAAGGATGAATTAAGGTATGAAATGATGCATTAA
1 GCATGAAAGTATG-CATAAATGAAATGCATGAAAGGATGAATTAACG--TGAAAGGATGCATTAA
1138720 GGCATGAAATGATGCCATAAATGAAAT
63 GGCATGAAATGATGCCATAAATGAAAT
* *
1138747 GCATGAAA-TGATGCAT---T--AAGGCATGAAAGGATGCCATAATTGAAATGCCTGAAAGGATG
1 GCATGAAAGT-ATGCATAAATGAAATGCATGAAAGGATG----AATT--AA--CGTGAAAGGATG
* *
1138806 CATTAAGGCATGAAAGGATGTCATAAATGAAAT
57 CATTAAGGCATGAAATGATGCCATAAATGAAAT
** * *
1138839 GTGTGAAAGGATGCATTAAGGCATGAAATG-ATGCCATAA--ATGAAAT-ACGTGAAAGGATGCA
1 GCATGAAAGTATGCA-TAA---ATGAAATGCATG--A-AAGGATGAATTAACGTGAAAGGATGCA
*
1138900 TTAAGGCATGAAATGATGCCATAAATGAAAG
59 TTAAGGCATGAAATGATGCCATAAATGAAAT
1138931 GCATGAAAG
1 GCATGAAAG
1138940 GATACATTAA
Statistics
Matches: 154, Mismatches: 17, Indels: 44
0.72 0.08 0.20
Matches are distributed among these distances:
86 15 0.10
88 1 0.01
90 4 0.03
91 4 0.03
92 112 0.73
93 1 0.01
94 1 0.01
97 3 0.02
99 1 0.01
100 3 0.02
101 6 0.04
102 1 0.01
103 2 0.01
ACGTcount: A:0.43, C:0.10, G:0.25, T:0.22
Consensus pattern (89 bp):
GCATGAAAGTATGCATAAATGAAATGCATGAAAGGATGAATTAACGTGAAAGGATGCATTAAGGC
ATGAAATGATGCCATAAATGAAAT
Found at i:1138760 original size:12 final size:12
Alignment explanation
Indices: 1138721--1138762 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
1138711 ATGCATTAAG
1138721 GCATGAAATGAT
1 GCATGAAATGAT
1138733 GCCAT-AAATGAAAT
1 G-CATGAAATG--AT
1138747 GCATGAAATGAT
1 GCATGAAATGAT
1138759 GCAT
1 GCAT
1138763 TAAGGCATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
12 12 0.46
13 6 0.23
14 8 0.31
ACGTcount: A:0.43, C:0.12, G:0.21, T:0.24
Consensus pattern (12 bp):
GCATGAAATGAT
Found at i:1138761 original size:46 final size:46
Alignment explanation
Indices: 1138703--1139022 Score: 478
Period size: 46 Copynumber: 7.0 Consensus size: 46
1138693 GAATTAAGGT
* *
1138703 ATGAAATGATGCATTAAGGCATGAAATGATGCCATAAATGAAATGC
1 ATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATGAAATGC
* *
1138749 ATGAAATGATGCATTAAGGCATGAAAGGATGCCATAATTGAAATGC
1 ATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATGAAATGC
* * *
1138795 CTGAAAGGATGCATTAAGGCATGAAAGGATGTCATAAATGAAATGT
1 ATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATGAAATGC
* * *
1138841 GTGAAAGGATGCATTAAGGCATGAAATGATGCCATAAATGAAATAC
1 ATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATGAAATGC
* * *
1138887 GTGAAAGGATGCATTAAGGCATGAAATGATGCCATAAATGAAAGGC
1 ATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATGAAATGC
* *
1138933 ATGAAAGGATACATTAAGGCATGAAAGGATTCCATAAATGAAATGC
1 ATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATGAAATGC
* * *
1138979 ATAAAAGGATGCATTAAGGCATGAAAGTATACCATAAATGAAAT
1 ATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATGAAAT
1139023 TAATGAATAA
Statistics
Matches: 251, Mismatches: 23, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 251 1.00
ACGTcount: A:0.44, C:0.10, G:0.23, T:0.23
Consensus pattern (46 bp):
ATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATGAAATGC
Found at i:1138800 original size:158 final size:158
Alignment explanation
Indices: 1138510--1138872 Score: 582
Period size: 158 Copynumber: 2.3 Consensus size: 158
1138500 TAAAATGAAT
*
1138510 CCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCATTAAGGAATGAAAGGAT
1 CCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAATGATGCATTAAGGAATGAAAGGAT
* *
1138575 GTCATAAATGAAATGCATGAAAGGATGCATTAAGGCATAAAAGGATGTCATAAATGAAATGCATG
66 GCCATAAATGAAATGCATGAAAGGATGCATTAAGGCATAAAAGGATGCCATAAATGAAATGCATG
* *
1138640 AAAGGATGCATTTAGGCATGAAAGTATG
131 AAAGGATGCATTAAGGCATGAAAGGATG
* * * *
1138668 CCATAAATGAAATGCATGAAAGGATGAATTAAGGTATGAAATGATGCATTAAGGCATGAAATGAT
1 CCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAATGATGCATTAAGGAATGAAAGGAT
* * * *
1138733 GCCATAAATGAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGCCATAATTGAAATGCCTG
66 GCCATAAATGAAATGCATGAAAGGATGCATTAAGGCATAAAAGGATGCCATAAATGAAATGCATG
1138798 AAAGGATGCATTAAGGCATGAAAGGATG
131 AAAGGATGCATTAAGGCATGAAAGGATG
* **
1138826 TCATAAATGAAATGTGTGAAAGGATGCATTAAGGCATGAAATGATGC
1 CCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAATGATGC
1138873 CATAAATGAA
Statistics
Matches: 187, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
158 187 1.00
ACGTcount: A:0.43, C:0.09, G:0.25, T:0.23
Consensus pattern (158 bp):
CCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAATGATGCATTAAGGAATGAAAGGAT
GCCATAAATGAAATGCATGAAAGGATGCATTAAGGCATAAAAGGATGCCATAAATGAAATGCATG
AAAGGATGCATTAAGGCATGAAAGGATG
Found at i:1151243 original size:21 final size:19
Alignment explanation
Indices: 1151215--1151260 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
1151205 TCACTGAATC
1151215 ATTA-TTCTTAGCTCCTTAAT
1 ATTAGTTCTTAGCT--TTAAT
1151235 ATTAGTTCTTAGCTTTAAT
1 ATTAGTTCTTAGCTTTAAT
1151254 ACTTAGT
1 A-TTAGT
1151261 AGGATTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.50
Consensus pattern (19 bp):
ATTAGTTCTTAGCTTTAAT
Found at i:1154155 original size:81 final size:81
Alignment explanation
Indices: 1154063--1154545 Score: 608
Period size: 81 Copynumber: 5.9 Consensus size: 81
1154053 TTCATCTAGA
* * ** * **
1154063 GCATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTATGCCAAATGCATAGCTAGGCTTTT
1 GCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTATCAAATGCACAGCTAGGCCATT
**
1154128 GGTCTTTTACTCAAAG
66 AATCTTTTACTCAAAG
** * * * *
1154144 GCATTTAACCTTTCATCTAACTAACATGATTGACTCCTTTCTATAAAATACACAGCTAGGCCATT
1 GCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTATCAAATGCACAGCTAGGCCATT
*
1154209 AATCTTTTACT-AAAA
66 AATCTTTTACTCAAAG
* * * * ** *
1154224 GCTATTTTTAACCTTTCATCTAACTGGTATAATTAACACCTTTATGTCATCTGCACAGCTAGGTC
1 GC-A--TTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTATCAAATGCACAGCTAGGCC
1154289 ATTAATCTTTTACTCAAAG
63 ATTAATCTTTTACTCAAAG
* * * *
1154308 GTATTTAACATTTCATCTAACTGCCATAATTGACACTTTTCTATCAAATGCACAGCTAGGCCATT
1 GCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTATCAAATGCACAGCTAGGCCATT
1154373 AATCTTTTACTCAAAG
66 AATCTTTTACTCAAAG
* * * *
1154389 GTATTTAACCTTTCATCTAACTGACGTAATTGACACCTTTCTATCAAATGCACAACTAGGCCATT
1 GCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTATCAAATGCACAGCTAGGCCATT
1154454 AATCTTTTACTCAAAG
66 AATCTTTTACTCAAAG
* * * * *
1154470 GTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTGTGTCAAATGCACAGTTAGGCCATT
1 GCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTATCAAATGCACAGCTAGGCCATT
1154535 AATCTTTTACT
66 AATCTTTTACT
1154546 TTAGAATAGT
Statistics
Matches: 347, Mismatches: 51, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
80 5 0.01
81 277 0.80
83 61 0.18
84 4 0.01
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.36
Consensus pattern (81 bp):
GCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTATCAAATGCACAGCTAGGCCATT
AATCTTTTACTCAAAG
Found at i:1155748 original size:155 final size:153
Alignment explanation
Indices: 1155466--1155892 Score: 651
Period size: 155 Copynumber: 2.8 Consensus size: 153
1155456 CGCACACGTC
* * *
1155466 CATAATGTGTAAGTTCCCCAGAACCATACAACCCCGGTACAACAGTAAGGCCTTGAGCACACAGC
1 CATAATGTGTAGGTTCCCCAGAACCATACAACCCCGCT-CAACAGTAAGGCCCTGAGCACACAGC
* *
1155531 CGATGTGCCTTCATATATTCTTCCTCCAACAATAACCCCCCAAATAAAACATTTATCAAAAACCA
65 CGAGGAGCCTTCATATATTCTTCCTCCAACAATAA-CCCCCAAATAAAACATTTATCAAAAACCA
*
1155596 TAGTAAATCCCCCAACCGAACACAA
129 TAGTAAATCCCCCAACCAAACACAA
*
1155621 CATAATGTGTAGGTTCCCCAGAACCATATAACCCCGACTCAACAGTAAGGCCCTGAGCACACAGC
1 CATAATGTGTAGGTTCCCCAGAACCATACAACCCCG-CTCAACAGTAAGGCCCTGAGCACACAGC
*
1155686 CGAGGAGCCTTCATAAATTCTTCCTCCAACAATAACCCCACAAATAAAACATTTATCAAAAACCA
65 CGAGGAGCCTTCATATATTCTTCCTCCAACAATAACCCC-CAAATAAAACATTTATCAAAAACCA
*
1155751 TAGTAAATCCCCCAACCAAACACAT
129 TAGTAAATCCCCCAACCAAACACAA
* * * * *
1155776 CATAATGTATAGGTTCCCCAAAACCATACAACCCCGGCACAACAGCT-AGGCCCTGAGCATAAAG
1 CATAATGTGTAGGTTCCCCAGAACCATACAACCCC-GCTCAACAG-TAAGGCCCTGAGCACACAG
*
1155840 CCGAGGAGCCTTCATATATTCTTCCTCCAATAAT-ACCCCCAAATAAAACATTT
64 CCGAGGAGCCTTCATATATTCTTCCTCCAACAATAACCCCCAAATAAAACATTT
1155893 TTCCGTCAAT
Statistics
Matches: 251, Mismatches: 17, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
153 14 0.06
154 9 0.04
155 225 0.90
156 3 0.01
ACGTcount: A:0.37, C:0.31, G:0.11, T:0.20
Consensus pattern (153 bp):
CATAATGTGTAGGTTCCCCAGAACCATACAACCCCGCTCAACAGTAAGGCCCTGAGCACACAGCC
GAGGAGCCTTCATATATTCTTCCTCCAACAATAACCCCCAAATAAAACATTTATCAAAAACCATA
GTAAATCCCCCAACCAAACACAA
Found at i:1156024 original size:24 final size:24
Alignment explanation
Indices: 1155973--1156028 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
1155963 TCCAGATAAT
* * *
1155973 AAATTAGAACATAATTCATATCAA
1 AAATCAGAACATAATTCAAAACAA
* *
1155997 AAATCAGAACATATTTCAAAACAG
1 AAATCAGAACATAATTCAAAACAA
1156021 AAATCAGA
1 AAATCAGA
1156029 TAAAACATTC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.55, C:0.14, G:0.07, T:0.23
Consensus pattern (24 bp):
AAATCAGAACATAATTCAAAACAA
Found at i:1157140 original size:18 final size:18
Alignment explanation
Indices: 1157117--1157152 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1157107 ATTCCGTCTG
*
1157117 AACTTATTATTAAATTCA
1 AACTTATCATTAAATTCA
*
1157135 AACTTATCATTAATTTCA
1 AACTTATCATTAAATTCA
1157153 GTCATTTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.14, G:0.00, T:0.44
Consensus pattern (18 bp):
AACTTATCATTAAATTCA
Found at i:1160683 original size:15 final size:16
Alignment explanation
Indices: 1160663--1160699 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
1160653 TTATTATTAT
1160663 AAAATATTA-TGTCAC
1 AAAATATTACTGTCAC
1160678 AAAATA--ACTGTCAC
1 AAAATATTACTGTCAC
1160692 AAAATATT
1 AAAATATT
1160700 TAAATATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 5
0.79 0.00 0.21
Matches are distributed among these distances:
13 1 0.05
14 12 0.63
15 6 0.32
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.30
Consensus pattern (16 bp):
AAAATATTACTGTCAC
Found at i:1163474 original size:23 final size:22
Alignment explanation
Indices: 1163426--1163475 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
1163416 TTTTTTAAAT
* *
1163426 AGTGATGAACAGTACCGTGAAT
1 AGTGATGAACAGCACCGTGAAC
*
1163448 AGTGATGAACAGCCCCCGTGAAC
1 AGTGATGAACAG-CACCGTGAAC
1163471 AGTGA
1 AGTGA
1163476 GCAGTGTACC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.34, C:0.20, G:0.28, T:0.18
Consensus pattern (22 bp):
AGTGATGAACAGCACCGTGAAC
Found at i:1167643 original size:20 final size:20
Alignment explanation
Indices: 1167618--1167666 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
1167608 AATTGAATTA
* *
1167618 GTATCGATACTGATGTGGA-G
1 GTATCGATAC-CATGAGGACG
1167638 GTATCGATACCATGAGGACG
1 GTATCGATACCATGAGGACG
1167658 GTATCGATA
1 GTATCGATA
1167667 TTGTAGTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 6 0.23
20 20 0.77
ACGTcount: A:0.29, C:0.14, G:0.31, T:0.27
Consensus pattern (20 bp):
GTATCGATACCATGAGGACG
Found at i:1168855 original size:21 final size:21
Alignment explanation
Indices: 1168829--1168873 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1168819 GTATATTCAC
* *
1168829 ATTCACTTTTTCAAAGCTCAT
1 ATTCACATGTTCAAAGCTCAT
* *
1168850 ATTCACATGTTCAAGGTTCAT
1 ATTCACATGTTCAAAGCTCAT
1168871 ATT
1 ATT
1168874 TTCATAACAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.20, G:0.09, T:0.42
Consensus pattern (21 bp):
ATTCACATGTTCAAAGCTCAT
Found at i:1169249 original size:20 final size:22
Alignment explanation
Indices: 1169226--1169271 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
1169216 GAGGTATCGG
1169226 TACCACCC-T-AAGGGTACCGA
1 TACCACCCTTCAAGGGTACCGA
*
1169246 TACCACCCTTCAAGGGTATCGA
1 TACCACCCTTCAAGGGTACCGA
1169268 TACC
1 TACC
1169272 TCTTCATGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.35
21 1 0.04
22 14 0.61
ACGTcount: A:0.28, C:0.35, G:0.17, T:0.20
Consensus pattern (22 bp):
TACCACCCTTCAAGGGTACCGA
Found at i:1169941 original size:26 final size:27
Alignment explanation
Indices: 1169886--1169942 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
1169876 AATATACAAC
* *
1169886 ACAACTTTTTATAAATCACATTTAAGG
1 ACAACTTTTTATAAATCACACTAAAGG
* *
1169913 ACAAC-TTTTATAAATTACACTAAATG
1 ACAACTTTTTATAAATCACACTAAAGG
1169939 ACAA
1 ACAA
1169943 TATTTTAGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 21 0.81
27 5 0.19
ACGTcount: A:0.46, C:0.16, G:0.05, T:0.33
Consensus pattern (27 bp):
ACAACTTTTTATAAATCACACTAAAGG
Found at i:1170002 original size:29 final size:28
Alignment explanation
Indices: 1169954--1170035 Score: 119
Period size: 29 Copynumber: 2.8 Consensus size: 28
1169944 ATTTTAGTAA
*
1169954 AAGGACAAAACTTTACATAAATTAAAATT
1 AAGGACAAAACTTT-TATAAATTAAAATT
1169983 AAGGACAAAACATTTTATAAATTAAAATT
1 AAGGACAAAAC-TTTTATAAATTAAAATT
*
1170012 AAGGATAAAACCTTTTATAAATTA
1 AAGGACAAAA-CTTTTATAAATTA
1170036 TAATAGAGAC
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
29 45 0.92
30 4 0.08
ACGTcount: A:0.54, C:0.09, G:0.07, T:0.30
Consensus pattern (28 bp):
AAGGACAAAACTTTTATAAATTAAAATT
Found at i:1178627 original size:20 final size:19
Alignment explanation
Indices: 1178568--1178629 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 19
1178558 ACAACTCGTA
*
1178568 ATTTGCATCGAAGTGCCAC
1 ATTTGCACCGAAGTGCCAC
1178587 ATAATTGTC-CCGAAG-GACCAC
1 AT--TTG-CACCGAAGTG-CCAC
1178608 AGTTTGCACCGAAGTGCCAC
1 A-TTTGCACCGAAGTGCCAC
1178628 AT
1 AT
1178630 AGGTTTTTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 14
0.70 0.02 0.28
Matches are distributed among these distances:
19 4 0.11
20 15 0.43
21 14 0.40
22 2 0.06
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (19 bp):
ATTTGCACCGAAGTGCCAC
Found at i:1179244 original size:20 final size:21
Alignment explanation
Indices: 1179221--1179266 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
1179211 GAGGTATCGG
1179221 TACCACCC-TAAGGGTACCGA
1 TACCACCCTTAAGGGTACCGA
*
1179241 TACCACCCTTTAAGGGTATCGA
1 TACCACCC-TTAAGGGTACCGA
1179263 TACC
1 TACC
1179267 TCTTCATGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.35
22 15 0.65
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.22
Consensus pattern (21 bp):
TACCACCCTTAAGGGTACCGA
Found at i:1180490 original size:45 final size:45
Alignment explanation
Indices: 1180422--1180658 Score: 350
Period size: 45 Copynumber: 5.3 Consensus size: 45
1180412 AATATTCATT
* *
1180422 ATTTCCATTTATGGCAT-CTTTCATGCCTTTAATGTACTGTTATGC
1 ATTT-CATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
1180467 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
* * *
1180512 ATTTTATATATGGAATCCTTTCATGCCTTTAATGCACCGTTATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
* * * *
1180557 ATTTCATTTATGACATCCTTTCATACCTTTAGTGCACCGTTATAC
1 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
* * *
1180602 ATTTCATTTATGGCATCCTTTAATGCCTTTAATGTACCATTATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
1180647 ATTTCATTTATG
1 ATTTCATTTATG
1180659 TAATGAAATA
Statistics
Matches: 172, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
44 12 0.07
45 160 0.93
ACGTcount: A:0.23, C:0.21, G:0.12, T:0.44
Consensus pattern (45 bp):
ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
Found at i:1181031 original size:34 final size:34
Alignment explanation
Indices: 1180992--1181069 Score: 129
Period size: 34 Copynumber: 2.3 Consensus size: 34
1180982 CTTTCTATCA
* *
1180992 GTATCGATACCATTTTGGTATTCTGGAATCCATG
1 GTATCGATACCATTTTGGCATTCTGGAATACATG
*
1181026 GTATCGATATCATTTTGGCATTCTGGAATACATG
1 GTATCGATACCATTTTGGCATTCTGGAATACATG
1181060 GTATCGATAC
1 GTATCGATAC
1181070 TTTCCTTTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.37
Consensus pattern (34 bp):
GTATCGATACCATTTTGGCATTCTGGAATACATG
Found at i:1182729 original size:23 final size:23
Alignment explanation
Indices: 1182687--1182766 Score: 81
Period size: 23 Copynumber: 3.5 Consensus size: 23
1182677 CTGCGCGGTC
* *
1182687 CTTCGAGACAA-TCTATGTGGTT
1 CTTCGGGACAATTCTACGTGGTT
*
1182709 CTTCGGGACATTTCTACGTGGTT
1 CTTCGGGACAATTCTACGTGGTT
* * *
1182732 CTTTGGGAAAAATTCTACGTGGTC
1 CTTCGGG-ACAATTCTACGTGGTT
*
1182756 CTTCGAGACAA
1 CTTCGGGACAA
1182767 AACTATGTGG
Statistics
Matches: 46, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
22 9 0.20
23 19 0.41
24 18 0.39
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.34
Consensus pattern (23 bp):
CTTCGGGACAATTCTACGTGGTT
Found at i:1182752 original size:24 final size:23
Alignment explanation
Indices: 1182698--1182760 Score: 72
Period size: 24 Copynumber: 2.7 Consensus size: 23
1182688 TTCGAGACAA
* * *
1182698 TCTATGTGGTTCTTCGGGACATT
1 TCTACGTGGTTCTTCGGGAAAAT
*
1182721 TCTACGTGGTTCTTTGGGAAAAAT
1 TCTACGTGGTTCTTCGGG-AAAAT
*
1182745 TCTACGTGGTCCTTCG
1 TCTACGTGGTTCTTCG
1182761 AGACAAAACT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 16 0.48
24 17 0.52
ACGTcount: A:0.16, C:0.19, G:0.25, T:0.40
Consensus pattern (23 bp):
TCTACGTGGTTCTTCGGGAAAAT
Found at i:1188821 original size:24 final size:22
Alignment explanation
Indices: 1188764--1188825 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
1188754 GAGTCGAGGG
* * *
1188764 TTCTATACGATCCTTCGGGCAT
1 TTCTATGCGGTCCTTCGGGCAA
* *
1188786 TTCTACGTGGTCCTTCGGGACAAA
1 TTCTATGCGGTCCTTCGGG-C-AA
1188810 TTCTATGCGGTCCTTC
1 TTCTATGCGGTCCTTC
1188826 AGGAAAAAAC
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
22 15 0.48
23 1 0.03
24 15 0.48
ACGTcount: A:0.16, C:0.27, G:0.21, T:0.35
Consensus pattern (22 bp):
TTCTATGCGGTCCTTCGGGCAA
Found at i:1190312 original size:21 final size:21
Alignment explanation
Indices: 1190286--1190327 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1190276 TTTATAATTT
*
1190286 TAAGAAAATAAATTTTAAATC
1 TAAGAAAATAAAATTTAAATC
1190307 TAAGAAAATAAAATTTAAATC
1 TAAGAAAATAAAATTTAAATC
1190328 ACTTTTGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.31
Consensus pattern (21 bp):
TAAGAAAATAAAATTTAAATC
Found at i:1198991 original size:25 final size:23
Alignment explanation
Indices: 1198941--1198992 Score: 59
Period size: 25 Copynumber: 2.2 Consensus size: 23
1198931 AAATAAAATC
* **
1198941 AAAGCACTCAAAAGAAGAAATTG
1 AAAGCACTAAAAAGAAGAAAAAG
1198964 AAAGCACTTAAAAAGGAAGAAAAAG
1 AAAGCAC-TAAAAA-GAAGAAAAAG
1198989 AAAG
1 AAAG
1198993 AAAGTTGAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 7 0.29
24 5 0.21
25 12 0.50
ACGTcount: A:0.62, C:0.10, G:0.19, T:0.10
Consensus pattern (23 bp):
AAAGCACTAAAAAGAAGAAAAAG
Found at i:1203278 original size:32 final size:32
Alignment explanation
Indices: 1203237--1203310 Score: 130
Period size: 32 Copynumber: 2.3 Consensus size: 32
1203227 TGTATCGATG
*
1203237 CACTGTTCACGTACTGTAGCAGTGCATCTGTA
1 CACTGTTCACGTACTGTAGCAGTGCATCAGTA
*
1203269 CACTGTTCACGTACTGTAGTAGTGCATCAGTA
1 CACTGTTCACGTACTGTAGCAGTGCATCAGTA
1203301 CACTGTTCAC
1 CACTGTTCAC
1203311 TGTTCAAGGC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (32 bp):
CACTGTTCACGTACTGTAGCAGTGCATCAGTA
Found at i:1206784 original size:27 final size:28
Alignment explanation
Indices: 1206751--1206821 Score: 81
Period size: 27 Copynumber: 2.5 Consensus size: 28
1206741 CGGGGATATG
*
1206751 ATCCCATACAAAACAGATCGGGGAA-AA
1 ATCCCATACAAAACAGATCGGGCAATAA
* **
1206778 ATCCCATACAGAGTAGATCGGGCAATAA
1 ATCCCATACAAAACAGATCGGGCAATAA
*
1206806 ATCTCATACAGAAACA
1 ATCCCATACA-AAACA
1206822 AGAATGTATG
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
27 21 0.62
28 11 0.32
29 2 0.06
ACGTcount: A:0.45, C:0.23, G:0.17, T:0.15
Consensus pattern (28 bp):
ATCCCATACAAAACAGATCGGGCAATAA
Found at i:1207426 original size:4 final size:4
Alignment explanation
Indices: 1207413--1207470 Score: 52
Period size: 4 Copynumber: 15.5 Consensus size: 4
1207403 TATGTAATAT
* * **
1207413 ATAC AT-C ATAC ATAC ATAC ATAC AT-- ATAC ATAC ATTC AT-T ATGT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1207457 ATAC ATAC ATAC AT
1 ATAC ATAC ATAC AT
1207471 GTTCTACAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
2 2 0.04
3 5 0.11
4 39 0.85
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.33
Consensus pattern (4 bp):
ATAC
Found at i:1207592 original size:4 final size:4
Alignment explanation
Indices: 1207585--1208010 Score: 764
Period size: 4 Copynumber: 106.5 Consensus size: 4
1207575 GTTCCATATA
*
1207585 ATAC ATAC AT-C ATAC ATAC ATAC TTAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1207632 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1207680 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * * *
1207728 ATAC ATAC ATAC GTAC GTAC GTAC GTAC GTAC GTAC GTAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1207776 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1207824 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1207872 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1207920 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1207968 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT-AC ATAC AT
1208011 TCATGCATCA
Statistics
Matches: 416, Mismatches: 4, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
3 3 0.01
4 409 0.98
5 4 0.01
ACGTcount: A:0.48, C:0.25, G:0.02, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:1210864 original size:16 final size:16
Alignment explanation
Indices: 1210829--1210869 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
1210819 GTTTACTTCA
*
1210829 GAATGATT-AAACGCT
1 GAATGATTCAAACGAT
*
1210844 GAATGATTCAAATGAT
1 GAATGATTCAAACGAT
1210860 GAATGATTCA
1 GAATGATTCA
1210870 GAGGTTCTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.29
Consensus pattern (16 bp):
GAATGATTCAAACGAT
Found at i:1211864 original size:23 final size:23
Alignment explanation
Indices: 1211838--1211882 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
1211828 ACATATTAAG
* *
1211838 TAGCGTTTATATAATATAATAAA
1 TAGCGCTTATATAATAAAATAAA
1211861 TAGCGCTTATATAATAAAATAA
1 TAGCGCTTATATAATAAAATAA
1211883 GTATTTAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.36
Consensus pattern (23 bp):
TAGCGCTTATATAATAAAATAAA
Found at i:1212297 original size:198 final size:193
Alignment explanation
Indices: 1211889--1212590 Score: 703
Period size: 198 Copynumber: 3.5 Consensus size: 193
1211879 ATAAGTATTT
* * ** * *
1211889 AACCGGTATATTTATACCGGTAGCATTGCAAATTTACCTATTGTATTATAATTATTCGTTTCGTT
1 AACCGGTATATTTATACTGGTA-CATTGTAAATTTACCTATTACATTATAATTATTTGTTTCGAT
* * * **
1211954 GTTTTTTGGATCAATACAATTTTAAATGTGTCGAAACTTTATGCCAGCACCTCGTTGGGCATTCC
65 G-TTTTTGGATCGATACAATTTTAAATGTATCGACACTTTATGCTTGCACCTCGTTGGGCATT-C
* * *
1212019 TAATTCATTCTGGAAAAAAGTATCGACATAAACTATAAAGGTGTCGATACATTATTTAGACCTAT
128 --ATT-A---TGGAAAAAAGTATCGACACAAA-T-TAAAAGTGTCGATACTTTATTTA-ACCTAT
1212084 TTTCTCATAA
184 TTTCTCATAA
* *
1212094 AACCGGTATATTTATACATGGTACATTGTAAATTTACCTATAACATTGTAATT-TTTGTTTCGAT
1 AACCGGTATATTTATAC-TGGTACATTGTAAATTTACCTATTACATTATAATTATTTGTTTCGAT
* *
1212158 GTTTTTGAGATCGATACAATTTTAAATGTATCGACACGTTATTCTTGCACCTCGTTGGGCATTCA
65 GTTTTTG-GATCGATACAATTTTAAATGTATCGACACTTTATGCTTGCACCTCGTTGGGCATTCA
*
1212223 TTATGGACAAAATGTATCGACACAAATTACACAAGTGTCGATACTTTATTCTAACCTATTTTCTC
129 TTATGGA-AAAAAGTATCGACACAAATTA-A-AAGTGTCGATACTTTATT-TAACCTATTTTCTC
1212288 ATAA
190 ATAA
* * * * * **
1212292 AACCGGTAAATTTAAACCGATTACATTGTAAATTGACCTATTACATTATAATTATCGGTTTCGAT
1 AACCGGTATATTTATACTG-GTACATTGTAAATTTACCTATTACATTATAATTATTTGTTTCGAT
* * * * * *
1212357 ATTTTTGTGATCGATACAATTTTAAATGTATCGATACTTTATGCGTGAACCT-GTTTGTGCTTTC
65 GTTTTTG-GATCGATACAATTTTAAATGTATCGACACTTTATGCTTGCACCTCG-TTGGGCATTC
* * * * * *
1212421 -TTTTGGAAAAAAGTATCGACACAAACTTAAAAAGTGTCGATACTTTATGTTGACATGTTTTATA
128 ATTATGGAAAAAAGTATCGACACAAA-TT-AAAAGTGTCGATACTTTAT-TTAACCTATTTTCTC
*
1212485 AT-T
190 ATAA
* * * **
1212488 AATCGGTATATGTATACTGGTTACATTGTTAATTTAAATATTACATTATAATTATTTGTTTCGAT
1 AACCGGTATATTTATACTGG-TACATTGTAAATTTACCTATTACATTATAATTATTTGTTTCGAT
* *
1212553 GTTTTTGGGGTCGATAC-TTTTTGAAAATGTATCGACAC
65 GTTTTT-GGATCGATACAATTTT--AAATGTATCGACAC
1212591 ATATTCTTAC
Statistics
Matches: 420, Mismatches: 61, Indels: 40
0.81 0.12 0.08
Matches are distributed among these distances:
195 4 0.01
196 67 0.16
197 66 0.16
198 103 0.25
199 65 0.15
200 1 0.00
201 3 0.01
203 7 0.02
204 58 0.14
205 42 0.10
206 4 0.01
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.40
Consensus pattern (193 bp):
AACCGGTATATTTATACTGGTACATTGTAAATTTACCTATTACATTATAATTATTTGTTTCGATG
TTTTTGGATCGATACAATTTTAAATGTATCGACACTTTATGCTTGCACCTCGTTGGGCATTCATT
ATGGAAAAAAGTATCGACACAAATTAAAAGTGTCGATACTTTATTTAACCTATTTTCTCATAA
Found at i:1215057 original size:183 final size:181
Alignment explanation
Indices: 1214749--1215553 Score: 1050
Period size: 182 Copynumber: 4.4 Consensus size: 181
1214739 ATTTAGATCG
1214749 TTTTACTGGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTTACCTGTTATATTGTTATGGA
1 TTTTACTGGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTTACCTGTTATATTGTTATGGA
* * *
1214814 TCAATATACTTTT-TTAAAGTATCGACACTTTATAGGCACTATAACTTCTTCTCTTTTAAATTCA
66 TCGATACA-TTTTCATAAAGTATCGACACTTTATAGGCA-TATAACTTCTTCTCTTTTAAATTCA
* *
1214878 GAAAGTTTCGATACTTATATTAAATTATCGACACTTTCAATATATCCGGTAGC
129 GAAAGTTTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAAC
1214931 ATTTTACTGGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTTACCTGTTATATTGTTATGG
1 -TTTTACTGGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTTACCTGTTATATTGTTATGG
* * * *
1214996 ATCGATACATTTTCATAAAGTGTCGACACTTTTTAAGCATAATAACTTTTTCTCTTTTAAATTCA
65 ATCGATACATTTTCATAAAGTATCGACACTTTATAGGCAT-ATAACTTCTTCTCTTTTAAATTCA
* * *
1215061 GAAAGTATCAATACTTATATTAAATTATCGACACTTTTAACATATCCGGTAAC
129 GAAAGTTTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAAC
* * * * *
1215114 TTTTTCCGGTTTTGTCATTTTTGAGACAC-GTTTTATCATATTTTTACCTGTTATATTGGTAAGG
1 TTTTACTGGTTTTGTCAATTTTGAGAC-CTGTTTTATCATATTTTTACCTGTTATATTGTTATGG
* * *
1215178 ATCGATACATTTTCATAAAGTGTCGACACTTTTTAGGCGTTATAACTTCTTCTCTTTTAAATTCA
65 ATCGATACATTTTCATAAAGTATCGACACTTTATAGGC-ATATAACTTCTTCTCTTTTAAATTCA
** * * *
1215243 GAAAGTGACGATACTAATATTAAATTATCAACACTTTCAATATATCCGGTAAC
129 GAAAGTTTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAAC
* * * * * *
1215296 TTTT-TTCGGTTTTGTCATTTTTTAGATCAGTTTTATCATATTTTTACCTGTTATATTGTTATAG
1 TTTTACT-GGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTTACCTGTTATATTGTTATGG
* ** *
1215360 ATCGATA-TTTTTTTTAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCA
65 ATCGATACATTTTCATAAAGTATCGACACTTTATAGGC-ATATAACTTCTTCTCTTTTAAATTCA
*
1215424 GAAAGTTTCGATACTTATATTAAATTATCGACAC--TCGACACATATCCGGTAGC
129 GAAAGTTTCGATACTTATATTAAATTATCGACACTTTC-A-ACATATCCGGTAAC
* * * * * *
1215477 GTTTTA-TCGGTTTTGTC-ATTTTGGGACCGGTTTTGTCATATTTGTACCTGTAATATTGCTATG
1 -TTTTACT-GGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTTACCTGTTATATTGTTATG
* *
1215540 GAGCGATCCATTTT
64 GATCGATACATTTT
1215554 TCATTTGTAT
Statistics
Matches: 552, Mismatches: 59, Indels: 23
0.87 0.09 0.04
Matches are distributed among these distances:
179 2 0.00
180 1 0.00
181 136 0.25
182 248 0.45
183 165 0.30
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.45
Consensus pattern (181 bp):
TTTTACTGGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTTACCTGTTATATTGTTATGGA
TCGATACATTTTCATAAAGTATCGACACTTTATAGGCATATAACTTCTTCTCTTTTAAATTCAGA
AAGTTTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAAC
Found at i:1216390 original size:3 final size:3
Alignment explanation
Indices: 1216365--1216413 Score: 73
Period size: 3 Copynumber: 16.7 Consensus size: 3
1216355 TCAATTAATT
* *
1216365 TTC TT- TTC TTT TTC TTT TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1216412 TT
1 TT
1216414 GGCATCCAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (3 bp):
TTC
Found at i:1222626 original size:62 final size:63
Alignment explanation
Indices: 1222499--1222617 Score: 195
Period size: 62 Copynumber: 1.9 Consensus size: 63
1222489 TTTTCGACTA
*
1222499 GACTCGATTTGAAAAAAACTCGACTTGAATCTAGTTCAAGTTGTAATTTCATAAACTCAACTC
1 GACTCGATTTGAAAAAAACTCGACTTGAATCTACTTCAAGTTGTAATTTCATAAACTCAACTC
* * *
1222562 GACTCGATTTG-AGAAAACTCGACTTGAATTTACTTCAAGTTGTAATTTTATAAACT
1 GACTCGATTTGAAAAAAACTCGACTTGAATCTACTTCAAGTTGTAATTTCATAAACT
1222618 AGATTCGACA
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
62 41 0.79
63 11 0.21
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.34
Consensus pattern (63 bp):
GACTCGATTTGAAAAAAACTCGACTTGAATCTACTTCAAGTTGTAATTTCATAAACTCAACTC
Found at i:1224353 original size:32 final size:32
Alignment explanation
Indices: 1224312--1224374 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
1224302 AAGTTAATAA
*
1224312 GAACAATAAAGTAAAAACTAGAATGTTAGTAT
1 GAACAATAAAATAAAAACTAGAATGTTAGTAT
**
1224344 GAACAATAAAATAAAAGTTAGAATGTTAGTA
1 GAACAATAAAATAAAAACTAGAATGTTAGTA
1224375 AGTTAGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.54, C:0.05, G:0.16, T:0.25
Consensus pattern (32 bp):
GAACAATAAAATAAAAACTAGAATGTTAGTAT
Found at i:1226639 original size:6 final size:6
Alignment explanation
Indices: 1226628--1226681 Score: 51
Period size: 6 Copynumber: 8.8 Consensus size: 6
1226618 TATATCAAAG
1226628 ATAAAA ATAAAA AT-AAA ATAAAA ATAGAAGGA GAT-AAA AT-AAA ATAAAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATA-AA--A -ATAAAA ATAAAA ATAAAA
1226677 ATAAA
1 ATAAA
1226682 GCAAAAAAGA
Statistics
Matches: 42, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
5 12 0.29
6 23 0.55
7 2 0.05
8 2 0.05
9 1 0.02
10 2 0.05
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (6 bp):
ATAAAA
Found at i:1227697 original size:109 final size:108
Alignment explanation
Indices: 1227536--1227811 Score: 410
Period size: 109 Copynumber: 2.5 Consensus size: 108
1227526 AATGGTTAGC
* * *
1227536 AGAGTCTGGACCATAATAATGTGGTTCGTACCCGGATC-AGTTCACCACAAGGTCGAATAATAAA
1 AGAGTCTGAACCATAATAATGTGGATCGTACCCGGATCGA-ATCACCACAAGGTCGAATAATAAA
* * *
1227600 TCAAACAAATTAATAAAAATAATAAAACACAATTAGGAGTTAAT
65 TCAAACAAATTAATAAAAATAAAAAAAAACAATTAAGAGTTAAT
* *
1227644 AGATTCTGAACCATAATAATGTGGATCGTATCCCGGATCGAATCACCACAAGGTCAAATAATAAA
1 AGAGTCTGAACCATAATAATGTGGATCGTA-CCCGGATCGAATCACCACAAGGTCGAATAATAAA
*
1227709 TCAAACAAATTAATAAAAATAAAAAAAAACAGTTAAGAGTTAAT
65 TCAAACAAATTAATAAAAATAAAAAAAAACAATTAAGAGTTAAT
* * *
1227753 AGAGTCTAAACCATAATAATGTGGATTGTACCCCAGATCGAATCACCACAAGGTCGAAT
1 AGAGTCTGAACCATAATAATGTGGATCGTA-CCCGGATCGAATCACCACAAGGTCGAAT
1227812 CGAATAAGAG
Statistics
Matches: 151, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
108 27 0.18
109 123 0.81
110 1 0.01
ACGTcount: A:0.45, C:0.17, G:0.15, T:0.23
Consensus pattern (108 bp):
AGAGTCTGAACCATAATAATGTGGATCGTACCCGGATCGAATCACCACAAGGTCGAATAATAAAT
CAAACAAATTAATAAAAATAAAAAAAAACAATTAAGAGTTAAT
Found at i:1227835 original size:4 final size:4
Alignment explanation
Indices: 1227822--1227851 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
1227812 CGAATAAGAG
1227822 AAAT -AAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1227852 CAATAGTTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:1228672 original size:13 final size:13
Alignment explanation
Indices: 1228654--1228678 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1228644 AGCCCAAAAA
1228654 AAGAAAGAGAAAT
1 AAGAAAGAGAAAT
1228667 AAGAAAGAGAAA
1 AAGAAAGAGAAA
1228679 ATTGAGAAGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.24, T:0.04
Consensus pattern (13 bp):
AAGAAAGAGAAAT
Done.