Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 24 of 199
Found at i:9941050 original size:141 final size:142
Alignment explanation
Indices: 9940747--9941093 Score: 478
Period size: 141 Copynumber: 2.4 Consensus size: 142
9940737 ACTTATCACT
* *
9940747 TTGTCTCTTGATCAGATAA--GTAGCTAAGCTATCACTTATCACTTTGTCTCTTGATCAGATAAG
1 TTGTCACTTGATCAGATAAGTGTAGCTAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAG
*
9940810 TATAGCCGAAGCTATCACTTATCACTTTTCACTTTCACTTGATCAGAAAGTGTAGCCGAAGCTTA
66 TATAGCCGAAGCTATCACTTATCAC--TT--CTTT--CTTGATCAGAAAGTATAGCCGAAGCTTA
9940875 TCACTTATCACTTTCCAC
125 TCACTTATCACTTTCCAC
9940893 TTGTCACTTGATCAGATAAGTGTAG-TGAAGCTATCACTTATCACTTTGTCACTTGATTCAGATA
1 TTGTCACTTGATCAGATAAGTGTAGCT-AAGCTATCACTTATCACTTTGTCACTTGA-TCAGATA
*
9940957 AGTATAGCCGAAGCTATCACTTGATCAC-T-TTT-TTGATCAGATAAGTATAGCCGAAGC-TATT
64 AGTATAGCCGAAGCTATCACTT-ATCACTTCTTTCTTGATCAGA-AAGTATAGCCGAAGCTTATC
9941018 ACTTATCACTTTCCAC
127 ACTTATCACTTTCCAC
* *
9941034 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC-TT-ACACTTGATCAGA
1 TTGTCACTTGATCAGATAAGTGTAGCT-AAGCTATCACTTATCACTTTGTCACTTGATCAGA
9941094 AGTACTCAAA
Statistics
Matches: 187, Mismatches: 7, Indels: 21
0.87 0.03 0.10
Matches are distributed among these distances:
139 5 0.03
140 7 0.04
141 55 0.29
142 31 0.17
144 3 0.02
146 18 0.10
147 2 0.01
148 32 0.17
149 29 0.16
150 5 0.03
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.35
Consensus pattern (142 bp):
TTGTCACTTGATCAGATAAGTGTAGCTAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAG
TATAGCCGAAGCTATCACTTATCACTTCTTTCTTGATCAGAAAGTATAGCCGAAGCTTATCACTT
ATCACTTTCCAC
Found at i:9944213 original size:49 final size:48
Alignment explanation
Indices: 9944158--9944351 Score: 298
Period size: 49 Copynumber: 4.0 Consensus size: 48
9944148 TTCGTTTTCT
* *
9944158 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACAAATCACATAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACG-AATCACAAATCACATAC
* *
9944207 CGATGCCATAGCCCAGCTATGGTCTTACACGAAATCACATATCACTTAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACG-AATCACAAATCACATAC
* *
9944256 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACTTAC
1 CGATGCCATAGCCCAGCTATGGTCTTACAC-GAATCACAAATCACATAC
9944305 CGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATAATCACAT
1 CGATGCCATAGCCCAGCTATGGTCTTACACGAATCACA-AATCACAT
9944352 GTTCACATGT
Statistics
Matches: 136, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
48 8 0.06
49 127 0.93
50 1 0.01
ACGTcount: A:0.31, C:0.30, G:0.14, T:0.24
Consensus pattern (48 bp):
CGATGCCATAGCCCAGCTATGGTCTTACACGAATCACAAATCACATAC
Found at i:9945665 original size:37 final size:37
Alignment explanation
Indices: 9945604--9945749 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
9945594 TACGTATGAT
* *
9945604 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
9945639 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
9945676 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
**
9945713 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
9945750 TAAAGCTATC
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 91 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.36
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:9945764 original size:46 final size:46
Alignment explanation
Indices: 9945713--9946078 Score: 446
Period size: 46 Copynumber: 7.6 Consensus size: 46
9945703 TAAGTGTAGC
**
9945713 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
9945759 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
9945805 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
9945857 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
9945909 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
9945955 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCC-AAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
9946000 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
9946052 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
9946079 AGTACTCAAA
Statistics
Matches: 289, Mismatches: 17, Indels: 28
0.87 0.05 0.08
Matches are distributed among these distances:
45 16 0.06
46 137 0.47
47 1 0.00
49 1 0.00
50 2 0.01
51 27 0.09
52 105 0.36
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:9945832 original size:52 final size:52
Alignment explanation
Indices: 9945756--9946072 Score: 417
Period size: 52 Copynumber: 6.3 Consensus size: 52
9945746 TAGCTAAAGC
* *
9945756 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
9945809 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * *
9945861 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
9945913 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
9945959 TATCAC-TTT-A----TCACTTGATCAGATAAGTATAGCC-AAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
9946004 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
9946056 TATCACTTTATCACTTG
1 TATCACTTT-TCACTTG
9946073 ATCAGAAGTA
Statistics
Matches: 238, Mismatches: 15, Indels: 22
0.87 0.05 0.08
Matches are distributed among these distances:
45 16 0.07
46 69 0.29
47 1 0.00
48 1 0.00
51 22 0.09
52 111 0.47
53 18 0.08
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:9945886 original size:150 final size:143
Alignment explanation
Indices: 9945724--9946078 Score: 593
Period size: 150 Copynumber: 2.4 Consensus size: 143
9945714 ACTTATCACT
*
9945724 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
*
9945789 GTATAGCCGAAGCTATCACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
66 GTATAGCCGAAGCTATCACTTATCAC-TTT-A----TCACTTGATCAGATAAGTATAGCC-AAGC
9945854 TATCACTTATCACTTTCCAC
124 TATCACTTATCACTTTCCAC
*
9945874 TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
*
9945939 GTATAGCCGAAGCTATCACTTATCACTTTATCACTTGATCAGATAAGTATAGCCAAGCTATTACT
66 GTATAGCCGAAGCTATCACTTATCACTTTATCACTTGATCAGATAAGTATAGCCAAGCTATCACT
9946004 TATCACTTTCCAC
131 TATCACTTTCCAC
* *
9946017 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTTGATCAGA
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGA
9946079 AGTACTCAAA
Statistics
Matches: 198, Mismatches: 7, Indels: 7
0.93 0.03 0.03
Matches are distributed among these distances:
143 82 0.41
144 23 0.12
148 1 0.01
149 3 0.02
150 89 0.45
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.34
Consensus pattern (143 bp):
TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
GTATAGCCGAAGCTATCACTTATCACTTTATCACTTGATCAGATAAGTATAGCCAAGCTATCACT
TATCACTTTCCAC
Found at i:9956364 original size:21 final size:20
Alignment explanation
Indices: 9956326--9956364 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
9956316 TAATGTGTTT
* *
9956326 CTTTTTTTTTAATCTAAATG
1 CTTTTCTTTTAATATAAATG
9956346 CTTTTCTTTTATATATAAA
1 CTTTTCTTTTA-ATATAAA
9956365 ATGCCTACTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.28, C:0.10, G:0.03, T:0.59
Consensus pattern (20 bp):
CTTTTCTTTTAATATAAATG
Found at i:9962895 original size:81 final size:80
Alignment explanation
Indices: 9962666--9962962 Score: 282
Period size: 81 Copynumber: 3.7 Consensus size: 80
9962656 TCATTATTCT
* * * * * * *
9962666 TTGATGATGGTC-GTATTGGGGGAGGATGCACTGAGCTCTGTATTGGTGGAATTGCCT-TCTCGG
1 TTGATGATGG-CATTATTGGAGGAGGATGCACTGAACTCTGTTTTGATGGAACTG-CTGGCT-GG
9962729 GAGATGCATGTAATGAGG
63 GAGATGCATGTAATGAGG
*** **
9962747 TTGATGATGGCACCGTTGGAGGAGGATGCA-T--TTTCTGTTTTGATGGAACTGCTGG-TGTAGG
1 TTGATGATGGCATTATTGGAGGAGGATGCACTGAACTCTGTTTTGATGGAACTGCTGGCTG--GG
*
9962808 AGATGCATGGAATGAGG
64 AGATGCATGTAATGAGG
* * *
9962825 TTGGTTATGGCATTATTGGAGGAGGATGCACTGAACTCTGTTTTGATGGAACCGCTGGCATGGGA
1 TTGATGATGGCATTATTGGAGGAGGATGCACTGAACTCTGTTTTGATGGAACTGCTGGC-TGGGA
*
9962890 AATGCATGTAATGAGG
65 GATGCATGTAATGAGG
* * * * *
9962906 TCGATGATGGCATTGTTAGAGGAGGATGCACTGAGATCTCTGTTCTGGTGGAACTGC
1 TTGATGATGGCATTATTGGAGGAGGATGCACTGA-A-CTCTGTTTTGATGGAACTGC
9962963 CGCTGTAGGC
Statistics
Matches: 176, Mismatches: 29, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
76 1 0.01
77 3 0.02
78 58 0.33
79 1 0.01
80 2 0.01
81 91 0.52
82 1 0.01
83 19 0.11
ACGTcount: A:0.22, C:0.12, G:0.35, T:0.30
Consensus pattern (80 bp):
TTGATGATGGCATTATTGGAGGAGGATGCACTGAACTCTGTTTTGATGGAACTGCTGGCTGGGAG
ATGCATGTAATGAGG
Found at i:9964974 original size:228 final size:227
Alignment explanation
Indices: 9964532--9965218 Score: 1043
Period size: 231 Copynumber: 3.0 Consensus size: 227
9964522 AAATTTGCTG
* *
9964532 GGAGGGGAGTTGCATGTGGGGTGGTTGGTGATGGCATTTTTGGGTAAGGATGCACTAAACTCTGT
1 GGAGGGGAGTTGCATGTGGGGTGGTTGGTGATGGCA-TTTTGGGGAAGGATGCACTAAGCTCTGT
* *
9964597 ATGGGTGGAGATGCTGGAATAGGCGGCAACAACATGGCTCTTGGTGCTGGTAGTGTAGGAGGTAA
65 ATGGGTGGACATGCTGGAATAGGCGGCAACAGCATGGCTCTT-G-G-TGGTAGTGTAGGAGGTAA
* * *
9964662 AATTAAATTTGATGAATGTATCATTATCTGATCGCATGGTTTTGCAGTTTCATCGTTTTGATCAC
127 AATTAAATTTGATGAAGGTATCATTAACTTATCGCATGGTTTTGCAGTTTCATCGTTTTGATCA-
*
9964727 TTTTT-CGGATTACTTGTTGCTGCTCAATTGTTTCTA
191 TTTTTGCGGTTTACTTGTTGCTGCTCAATTGTTTCTA
* * *
9964763 GGAGGGGAGTTGCATGTGGGGTGGTTGATGATGGCATTTTCGGGGAAGGATGCAATAAGCTCTCT
1 GGAGGGGAGTTGCATGTGGGGTGGTTGGTGATGGCATTTT-GGGGAAGGATGCACTAAGCTCTGT
*
9964828 ATGGGTGGACATGCTGGAATAGGCGACAACAGCATGGCTCTTGGTGGTAGTGTAGGAGGTAAAAT
65 ATGGGTGGACATGCTGGAATAGGCGGCAACAGCATGGCTCTTGGTGGTAGTGTAGGAGGTAAAAT
*
9964893 TAAATTTGATGAAGGTATCATTAACTTATCGCATGGTTTTGCACTTTCATCGTTTTGATCATTTT
130 TAAATTTGATGAAGGTATCATTAACTTATCGCATGGTTTTGCAGTTTCATCGTTTTGATCATTTT
*
9964958 TGCGGTTTACTTGTTGCTGCTCAATTGTTTCTG
195 TGCGGTTTACTTGTTGCTGCTCAATTGTTTCTA
* * *
9964991 GGAGGAGAGTTGCATGTAGGGTGGTTGGTGATGGCATTATTGGGGAAGGGTGCACTAAGCTCTGT
1 GGAGGGGAGTTGCATGTGGGGTGGTTGGTGATGGCATT-TTGGGGAAGGATGCACTAAGCTCTGT
* * * *
9965056 ATGGGTGGACATTCTGAAATAGGCGGCAACAGCATGGCTCCTGGTGCTGGTAGTGTAGAAGGTAA
65 ATGGGTGGACATGCTGGAATAGGCGGCAACAGCATGGCT-CT--TGGTGGTAGTGTAGGAGGTAA
* * * * *
9965121 AATTAAATTTGATGAAGGTATTATTGACTTATCGCATGGTTCTGCAGTTTCATCGGTTTGATCAC
127 AATTAAATTTGATGAAGGTATCATTAACTTATCGCATGGTTTTGCAGTTTCATCGTTTTGATCAT
9965186 TTTTGCGGTTTACTTGTTGCTGCTCAATTGTTT
192 TTTTGCGGTTTACTTGTTGCTGCTCAATTGTTT
9965219 TTGCTGCTTT
Statistics
Matches: 419, Mismatches: 31, Indels: 12
0.91 0.07 0.03
Matches are distributed among these distances:
227 5 0.01
228 199 0.47
229 5 0.01
230 5 0.01
231 205 0.49
ACGTcount: A:0.22, C:0.13, G:0.31, T:0.35
Consensus pattern (227 bp):
GGAGGGGAGTTGCATGTGGGGTGGTTGGTGATGGCATTTTGGGGAAGGATGCACTAAGCTCTGTA
TGGGTGGACATGCTGGAATAGGCGGCAACAGCATGGCTCTTGGTGGTAGTGTAGGAGGTAAAATT
AAATTTGATGAAGGTATCATTAACTTATCGCATGGTTTTGCAGTTTCATCGTTTTGATCATTTTT
GCGGTTTACTTGTTGCTGCTCAATTGTTTCTA
Found at i:9965217 original size:231 final size:229
Alignment explanation
Indices: 9964529--9965218 Score: 1071
Period size: 228 Copynumber: 3.0 Consensus size: 229
9964519 AATAAATTTG
* *
9964529 CTGGGAGGGGAGTTGCATGTGGGGTGGTTGGTGATGGCATTTTTGGGTAAGGATGCACTAAACTC
1 CTGGGAGGGGAGTTGCATGTGGGGTGGTTGGTGATGGCA-TTTTGGGGAAGGATGCACTAAGCTC
* * *
9964594 TGTATGGGTGGAGATGCTGGAATAGGCGGCAACAACATGGCTCTTGGTGCTGGTAGTGTAGGAGG
65 TGTATGGGTGGACATGCTGGAATAGGCGGCAACAGCATGGCTCCTGGTGCTGGTAGTGTAGGAGG
* *
9964659 TAAAATTAAATTTGATGAATGTATCATTATCTGATCGCATGGTTTTGCAGTTTCATCGTTTTGAT
130 TAAAATTAAATTTGATGAAGGTATCATTA-CTTATCGCATGGTTTTGCAGTTTCATCGTTTTGAT
* *
9964724 CACTTTTTCGGATTACTTGTTGCTGCTCAATTGTTT
194 CACTTTTGCGGTTTACTTGTTGCTGCTCAATTGTTT
* * *
9964760 CTAGGAGGGGAGTTGCATGTGGGGTGGTTGATGATGGCATTTTCGGGGAAGGATGCAATAAGCTC
1 CTGGGAGGGGAGTTGCATGTGGGGTGGTTGGTGATGGCATTTT-GGGGAAGGATGCACTAAGCTC
* * *
9964825 TCTATGGGTGGACATGCTGGAATAGGCGACAACAGCATGGCT-CT--TGGTGGTAGTGTAGGAGG
65 TGTATGGGTGGACATGCTGGAATAGGCGGCAACAGCATGGCTCCTGGTGCTGGTAGTGTAGGAGG
*
9964887 TAAAATTAAATTTGATGAAGGTATCATTAACTTATCGCATGGTTTTGCACTTTCATCGTTTTGAT
130 TAAAATTAAATTTGATGAAGGTATCATT-ACTTATCGCATGGTTTTGCAGTTTCATCGTTTTGAT
*
9964952 CATTTTTGCGGTTTACTTGTTGCTGCTCAATTGTTT
194 CACTTTTGCGGTTTACTTGTTGCTGCTCAATTGTTT
* * *
9964988 CTGGGAGGAGAGTTGCATGTAGGGTGGTTGGTGATGGCATTATTGGGGAAGGGTGCACTAAGCTC
1 CTGGGAGGGGAGTTGCATGTGGGGTGGTTGGTGATGGCATT-TTGGGGAAGGATGCACTAAGCTC
* * *
9965053 TGTATGGGTGGACATTCTGAAATAGGCGGCAACAGCATGGCTCCTGGTGCTGGTAGTGTAGAAGG
65 TGTATGGGTGGACATGCTGGAATAGGCGGCAACAGCATGGCTCCTGGTGCTGGTAGTGTAGGAGG
* * *
9965118 TAAAATTAAATTTGATGAAGGTATTATTGACTTATCGCATGGTTCTGCAGTTTCATCGGTTTGAT
130 TAAAATTAAATTTGATGAAGGTATCATT-ACTTATCGCATGGTTTTGCAGTTTCATCGTTTTGAT
9965183 CACTTTTGCGGTTTACTTGTTGCTGCTCAATTGTTT
194 CACTTTTGCGGTTTACTTGTTGCTGCTCAATTGTTT
9965219 TTGCTGCTTT
Statistics
Matches: 418, Mismatches: 35, Indels: 12
0.90 0.08 0.03
Matches are distributed among these distances:
228 204 0.49
229 5 0.01
230 5 0.01
231 204 0.49
ACGTcount: A:0.22, C:0.13, G:0.31, T:0.35
Consensus pattern (229 bp):
CTGGGAGGGGAGTTGCATGTGGGGTGGTTGGTGATGGCATTTTGGGGAAGGATGCACTAAGCTCT
GTATGGGTGGACATGCTGGAATAGGCGGCAACAGCATGGCTCCTGGTGCTGGTAGTGTAGGAGGT
AAAATTAAATTTGATGAAGGTATCATTACTTATCGCATGGTTTTGCAGTTTCATCGTTTTGATCA
CTTTTGCGGTTTACTTGTTGCTGCTCAATTGTTT
Found at i:9967998 original size:24 final size:24
Alignment explanation
Indices: 9967964--9968009 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
9967954 CATATGAAAT
* *
9967964 ATAAATTTTAAATATTTTTAAACA
1 ATAAATATTAAATATTTATAAACA
*
9967988 ATAAATATTAATTATTTATAAA
1 ATAAATATTAAATATTTATAAA
9968010 ATTTAATTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (24 bp):
ATAAATATTAAATATTTATAAACA
Found at i:9968881 original size:3 final size:3
Alignment explanation
Indices: 9968864--9968933 Score: 56
Period size: 3 Copynumber: 23.7 Consensus size: 3
9968854 TATACATAAA
* * * **
9968864 TAT TA- TAT ATAT TAT TAT TAT AAT TAT TAAC CAT TAT TAT GGT T-T
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT
9968909 TA- TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
9968934 AATAAAGTAA
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
2 6 0.11
3 43 0.81
4 4 0.08
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:9969395 original size:10 final size:10
Alignment explanation
Indices: 9969377--9969423 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
9969367 AACATAAAGT
*
9969377 AAATAAAATA
1 AAATGAAATA
9969387 AAATGAAATA
1 AAATGAAATA
**
9969397 AAA-GAAAGC
1 AAATGAAATA
9969406 AAATGAAATA
1 AAATGAAATA
*
9969416 AAAAGAAA
1 AAATGAAA
9969424 GAAAGAAACA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
9 7 0.23
10 23 0.77
ACGTcount: A:0.74, C:0.02, G:0.11, T:0.13
Consensus pattern (10 bp):
AAATGAAATA
Found at i:9969398 original size:19 final size:19
Alignment explanation
Indices: 9969386--9969427 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
9969376 TAAATAAAAT
9969386 AAAATGAAATAAAAGAAAG
1 AAAATGAAATAAAAGAAAG
*
9969405 CAAATGAAATAAAAAGAAAG
1 AAAATGAAAT-AAAAGAAAG
9969425 AAA
1 AAA
9969428 GAAACAGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.74, C:0.02, G:0.14, T:0.10
Consensus pattern (19 bp):
AAAATGAAATAAAAGAAAG
Found at i:9969409 original size:24 final size:24
Alignment explanation
Indices: 9969382--9969428 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
9969372 AAAGTAAATA
*
9969382 AAATAAAATGAAATA-AAAGAAAGC
1 AAATAAAAT-AAAAAGAAAGAAAGC
*
9969406 AAATGAAATAAAAAGAAAGAAAG
1 AAATAAAATAAAAAGAAAGAAAG
9969429 AAACAGAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.72, C:0.02, G:0.15, T:0.11
Consensus pattern (24 bp):
AAATAAAATAAAAAGAAAGAAAGC
Found at i:9977036 original size:25 final size:25
Alignment explanation
Indices: 9976955--9977052 Score: 69
Period size: 25 Copynumber: 4.0 Consensus size: 25
9976945 CTCTCAAGCA
*
9976955 CTATAACGGGAAGCTCAT--TGAGC
1 CTATAACGGGAAGCTCATAAAGAGC
* * **
9976978 CTTGTAACGGGAAGCTTATCTAG-GC
1 C-TATAACGGGAAGCTCATAAAGAGC
* *
9977003 AATAGAACGGGAAGCTCATAAAGAGC
1 -CTATAACGGGAAGCTCATAAAGAGC
* *
9977029 CTATAACGGGTAGCTC-CAAAGAGC
1 CTATAACGGGAAGCTCATAAAGAGC
9977053 AATTAATGGG
Statistics
Matches: 57, Mismatches: 13, Indels: 9
0.72 0.16 0.11
Matches are distributed among these distances:
23 1 0.02
24 22 0.39
25 31 0.54
26 3 0.05
ACGTcount: A:0.34, C:0.20, G:0.27, T:0.19
Consensus pattern (25 bp):
CTATAACGGGAAGCTCATAAAGAGC
Found at i:9977063 original size:24 final size:24
Alignment explanation
Indices: 9977036--9977082 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
9977026 AGCCTATAAC
9977036 GGGTAGCTCCAAAGAGCAATTAAT
1 GGGTAGCTCCAAAGAGCAATTAAT
**
9977060 GGGTAGCTCTTAAGAGCAATTAA
1 GGGTAGCTCCAAAGAGCAATTAA
9977083 CGGGAAGCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (24 bp):
GGGTAGCTCCAAAGAGCAATTAAT
Found at i:9979618 original size:17 final size:17
Alignment explanation
Indices: 9979575--9979622 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
9979565 TATAAATTTT
*
9979575 AATAATGTTTTAAAAAAT
1 AATAA-GTTTTAAAAAAA
* *
9979593 TACAA-TTTTAAAAAAA
1 AATAAGTTTTAAAAAAA
9979609 AATAAGTTTTAAAA
1 AATAAGTTTTAAAA
9979623 GTTTTAAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
16 13 0.54
17 8 0.33
18 3 0.12
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.35
Consensus pattern (17 bp):
AATAAGTTTTAAAAAAA
Found at i:9987086 original size:10 final size:10
Alignment explanation
Indices: 9987067--9987096 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
9987057 AGTCAACACA
*
9987067 TAAAATTTAT
1 TAAAAATTAT
9987077 TAAAAATTAT
1 TAAAAATTAT
9987087 TAAAAATTAT
1 TAAAAATTAT
9987097 ATATAAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (10 bp):
TAAAAATTAT
Found at i:9988163 original size:33 final size:33
Alignment explanation
Indices: 9988126--9988193 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
9988116 ATCTTTGCAA
9988126 TGAAAATAAACTTTTATCGATTAATATAGTGTG
1 TGAAAATAAACTTTTATCGATTAATATAGTGTG
9988159 TGAAAATAAACTTTTATCGATTAATATAGTGTG
1 TGAAAATAAACTTTTATCGATTAATATAGTGTG
9988192 TG
1 TG
9988194 GCACAGTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.38, C:0.06, G:0.16, T:0.40
Consensus pattern (33 bp):
TGAAAATAAACTTTTATCGATTAATATAGTGTG
Found at i:9992829 original size:21 final size:21
Alignment explanation
Indices: 9992803--9992843 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
9992793 AGACGAGCAA
* *
9992803 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
9992824 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
9992844 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:9995349 original size:23 final size:23
Alignment explanation
Indices: 9995323--9995391 Score: 77
Period size: 24 Copynumber: 3.0 Consensus size: 23
9995313 ACCATGTTTG
9995323 GACAGCTTTTATACACCAAATTC
1 GACAGCTTTTATACACCAAATTC
*
9995346 GACAGCATTTT-TACACCAAAATTG
1 GACAGC-TTTTATACACC-AAATTC
* * *
9995370 GACAGCATATAGACACCAAATT
1 GACAGCTTTTATACACCAAATT
9995392 GGGCAGCATA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
23 19 0.49
24 20 0.51
ACGTcount: A:0.39, C:0.23, G:0.12, T:0.26
Consensus pattern (23 bp):
GACAGCTTTTATACACCAAATTC
Found at i:9995374 original size:47 final size:47
Alignment explanation
Indices: 9995320--9995549 Score: 196
Period size: 47 Copynumber: 5.1 Consensus size: 47
9995310 AATACCATGT
* * * * *
9995320 TTGGACAGCTTTTATACACCAAATTCGACAGCATTTTTACACCAAAA
1 TTGGACAGCATATATACACCAAATTGGACAGCATATATACACCAAAA
* * *
9995367 TTGGACAGCATATAGACACCAAATTGGGCAGCATATATATACCAAAA
1 TTGGACAGCATATATACACCAAATTGGACAGCATATATACACCAAAA
* * *
9995414 -T-------ATATAT--ACCAAATTGGACAGCATTTTTACACTAAAA
1 TTGGACAGCATATATACACCAAATTGGACAGCATATATACACCAAAA
* * * *
9995451 TTAGACAGCATATAGACACCAAATTGGGCAGCATATATATACC-AAA
1 TTGGACAGCATATATACACCAAATTGGACAGCATATATACACCAAAA
* * * *
9995497 TTGGACAGCATTTTTACACCCAAATTGGACAGCATATAGACACC-GAA
1 TTGGACAGCATATATACA-CCAAATTGGACAGCATATATACACCAAAA
9995544 TTGGAC
1 TTGGAC
9995550 TTGAATCGAA
Statistics
Matches: 144, Mismatches: 28, Indels: 22
0.74 0.14 0.11
Matches are distributed among these distances:
37 25 0.17
38 1 0.01
39 5 0.03
45 5 0.03
46 18 0.12
47 90 0.62
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.26
Consensus pattern (47 bp):
TTGGACAGCATATATACACCAAATTGGACAGCATATATACACCAAAA
Found at i:9995398 original size:23 final size:23
Alignment explanation
Indices: 9995320--9995412 Score: 105
Period size: 23 Copynumber: 4.0 Consensus size: 23
9995310 AATACCATGT
* *
9995320 TTGGACAGCTTTTATACACCAAA
1 TTGGACAGCATATATACACCAAA
* * *
9995343 TTCGACAGCATTTTTACACCAAAA
1 TTGGACAGCATATATACACC-AAA
*
9995367 TTGGACAGCATATAGACACCAAA
1 TTGGACAGCATATATACACCAAA
* *
9995390 TTGGGCAGCATATATATACCAAA
1 TTGGACAGCATATATACACCAAA
9995413 ATATATATAC
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
23 40 0.68
24 19 0.32
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.26
Consensus pattern (23 bp):
TTGGACAGCATATATACACCAAA
Found at i:9995418 original size:14 final size:14
Alignment explanation
Indices: 9995399--9995426 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9995389 ATTGGGCAGC
9995399 ATATATATACCAAA
1 ATATATATACCAAA
9995413 ATATATATACCAAA
1 ATATATATACCAAA
9995427 TTGGACAGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (14 bp):
ATATATATACCAAA
Found at i:9995434 original size:84 final size:84
Alignment explanation
Indices: 9995332--9995496 Score: 294
Period size: 84 Copynumber: 2.0 Consensus size: 84
9995322 GGACAGCTTT
*
9995332 TATACACCAAATTCGACAGCATTTTTACACCAAAATTGGACAGCATATAGACACCAAATTGGGCA
1 TATACACCAAATTCGACAGCATTTTTACACCAAAATTAGACAGCATATAGACACCAAATTGGGCA
9995397 GCATATATATACCAAAATA
66 GCATATATATACCAAAATA
* * *
9995416 TATATACCAAATTGGACAGCATTTTTACACTAAAATTAGACAGCATATAGACACCAAATTGGGCA
1 TATACACCAAATTCGACAGCATTTTTACACCAAAATTAGACAGCATATAGACACCAAATTGGGCA
9995481 GCATATATATACCAAA
66 GCATATATATACCAAA
9995497 TTGGACAGCA
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 77 1.00
ACGTcount: A:0.43, C:0.20, G:0.12, T:0.25
Consensus pattern (84 bp):
TATACACCAAATTCGACAGCATTTTTACACCAAAATTAGACAGCATATAGACACCAAATTGGGCA
GCATATATATACCAAAATA
Found at i:9995457 original size:24 final size:23
Alignment explanation
Indices: 9995413--9995549 Score: 148
Period size: 23 Copynumber: 5.9 Consensus size: 23
9995403 ATATACCAAA
*
9995413 ATATATATACCAAATTGGACAGC
1 ATATATACACCAAATTGGACAGC
* * * *
9995436 ATTTTTACACTAAAATTAGACAGC
1 ATATATACAC-CAAATTGGACAGC
* *
9995460 ATATAGACACCAAATTGGGCAGC
1 ATATATACACCAAATTGGACAGC
*
9995483 ATATATATACCAAATTGGACAGC
1 ATATATACACCAAATTGGACAGC
* *
9995506 ATTTTTACACCCAAATTGGACAGC
1 ATATATACA-CCAAATTGGACAGC
* *
9995530 ATATAGACACCGAATTGGAC
1 ATATATACACCAAATTGGAC
9995550 TTGAATCGAA
Statistics
Matches: 91, Mismatches: 21, Indels: 4
0.78 0.18 0.03
Matches are distributed among these distances:
23 53 0.58
24 38 0.42
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.26
Consensus pattern (23 bp):
ATATATACACCAAATTGGACAGC
Found at i:9995495 original size:70 final size:70
Alignment explanation
Indices: 9995413--9995547 Score: 234
Period size: 70 Copynumber: 1.9 Consensus size: 70
9995403 ATATACCAAA
*
9995413 ATATATATACCAAATTGGACAGCATTTTTACACTAAAATTAGACAGCATATAGACACCAAATTGG
1 ATATATATACCAAATTGGACAGCATTTTTACACCAAAATTAGACAGCATATAGACACCAAATTGG
9995478 GCAGC
66 GCAGC
* * *
9995483 ATATATATACCAAATTGGACAGCATTTTTACACCCAAATTGGACAGCATATAGACACCGAATTGG
1 ATATATATACCAAATTGGACAGCATTTTTACACCAAAATTAGACAGCATATAGACACCAAATTGG
9995548 ACTTGAATCG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 61 1.00
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (70 bp):
ATATATATACCAAATTGGACAGCATTTTTACACCAAAATTAGACAGCATATAGACACCAAATTGG
GCAGC
Found at i:9996408 original size:40 final size:41
Alignment explanation
Indices: 9996311--9996408 Score: 126
Period size: 41 Copynumber: 2.4 Consensus size: 41
9996301 TGATCTCGAT
* * * * *
9996311 TTCGCACACTTAGTGCCCGTTATTTAACATCATTATTTAGT
1 TTCGCACACTTAGTGCTCATTATTCAACATCATCATTTAGA
*
9996352 TTCGCACACTTAGTGCTCATTATTCAACCTCATCATTTA-A
1 TTCGCACACTTAGTGCTCATTATTCAACATCATCATTTAGA
*
9996392 TTCGTACACTTAGTGCT
1 TTCGCACACTTAGTGCT
9996409 AATCATTTAG
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
40 16 0.32
41 34 0.68
ACGTcount: A:0.24, C:0.24, G:0.11, T:0.40
Consensus pattern (41 bp):
TTCGCACACTTAGTGCTCATTATTCAACATCATCATTTAGA
Found at i:10002623 original size:10 final size:9
Alignment explanation
Indices: 10002605--10002637 Score: 50
Period size: 10 Copynumber: 3.7 Consensus size: 9
10002595 GCACAAGGGA
10002605 TTTTTTTCT
1 TTTTTTTCT
10002614 TTTCTTTTCT
1 TTT-TTTTCT
10002624 TTTTTTT-T
1 TTTTTTTCT
10002632 TTTTTT
1 TTTTTT
10002638 GTGTGTGTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 7 0.30
9 7 0.30
10 9 0.39
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:10009529 original size:3 final size:3
Alignment explanation
Indices: 10009521--10009546 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
10009511 ACAGTGAATA
10009521 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
10009547 AATGTAAAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:10010917 original size:18 final size:17
Alignment explanation
Indices: 10010896--10010929 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
10010886 TTCTCTCTTT
*
10010896 ATTTTTTTTTCATTTTAC
1 ATTTTTTCTTC-TTTTAC
10010914 ATTTTTTCTTCTTTTA
1 ATTTTTTCTTCTTTTA
10010930 TAATATATGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.74
Consensus pattern (17 bp):
ATTTTTTCTTCTTTTAC
Found at i:10012896 original size:32 final size:32
Alignment explanation
Indices: 10012855--10012919 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
10012845 ATCATTAACC
* * *
10012855 CATCAGTCTTACTTTGTCTGTATACTTCCTTT
1 CATCAGTCTTACTTTGCCTATATACTTCATTT
10012887 CATCAGTCTTACTTTGCCTATATACTTCATTT
1 CATCAGTCTTACTTTGCCTATATACTTCATTT
10012919 C
1 C
10012920 CTTCCCAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.18, C:0.26, G:0.08, T:0.48
Consensus pattern (32 bp):
CATCAGTCTTACTTTGCCTATATACTTCATTT
Found at i:10015727 original size:8 final size:8
Alignment explanation
Indices: 10015714--10015743 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
10015704 TATATAAACT
10015714 ATATTTAA
1 ATATTTAA
10015722 ATATTTAA
1 ATATTTAA
*
10015730 ATAATTAA
1 ATATTTAA
10015738 ATATTT
1 ATATTT
10015744 GTAATTAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
ATATTTAA
Found at i:10015739 original size:16 final size:17
Alignment explanation
Indices: 10015695--10015743 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 17
10015685 TTATTAAATT
*
10015695 TAATTAGAATATATAAAC
1 TAATTA-AATATTTAAAC
10015713 TATATTTAAATATTTAAA-
1 TA-A-TTAAATATTTAAAC
10015731 TAATTAAATATTT
1 TAATTAAATATTT
10015744 GTAATTAGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
16 10 0.36
17 1 0.04
18 4 0.14
19 10 0.36
20 3 0.11
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (17 bp):
TAATTAAATATTTAAAC
Found at i:10017472 original size:13 final size:13
Alignment explanation
Indices: 10017454--10017478 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10017444 AAATTATCCA
10017454 ACCCAACCCAATT
1 ACCCAACCCAATT
10017467 ACCCAACCCAAT
1 ACCCAACCCAAT
10017479 AAAACTAAAA
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:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:10017517 original size:38 final size:41
Alignment explanation
Indices: 10017459--10017539 Score: 123
Period size: 41 Copynumber: 2.0 Consensus size: 41
10017449 ATCCAACCCA
*
10017459 ACCCAATTACCCAACCCAAT-AAA-ACTAAAACTAAAGTCT
1 ACCCAATTACCCAACCCAATAAAATAATAAAACTAAAGTCT
10017498 ACCCAATTA-CCAACCCAATAAAAATAATAAAACTAAAGTCT
1 ACCCAATTACCCAACCCAAT-AAAATAATAAAACTAAAGTCT
10017539 A
1 A
10017540 ACCCTTAAGT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
38 10 0.26
39 9 0.24
40 3 0.08
41 16 0.42
ACGTcount: A:0.52, C:0.27, G:0.02, T:0.19
Consensus pattern (41 bp):
ACCCAATTACCCAACCCAATAAAATAATAAAACTAAAGTCT
Found at i:10017714 original size:37 final size:37
Alignment explanation
Indices: 10017668--10017742 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
10017658 TGTTAATTTC
* *
10017668 AAGAATTATGTAATGTTTTTAATTATATAGTGATTCA
1 AAGAATTATGTAATATTTTTAATTATACAGTGATTCA
* *
10017705 AAGACTTATGTAATATTTTTAATTATGCAGTGATTCA
1 AAGAATTATGTAATATTTTTAATTATACAGTGATTCA
10017742 A
1 A
10017743 TTCGGGTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.37, C:0.05, G:0.13, T:0.44
Consensus pattern (37 bp):
AAGAATTATGTAATATTTTTAATTATACAGTGATTCA
Found at i:10020237 original size:83 final size:83
Alignment explanation
Indices: 10020098--10020291 Score: 370
Period size: 83 Copynumber: 2.3 Consensus size: 83
10020088 TTGTGGCTTT
*
10020098 GAACTTGTAACATTGTGTTTCTCATTCTTCCTTGTTTGGTTGCTCATAAAATTGAGGGAAAATGG
1 GAACTTGTAACATTGTGTTTCTCATTCTTCCTTGTTTGGTTGCTCATAAAATTGAGGGAAAATGA
10020163 GTATTTAACTACTTGATA
66 GTATTTAACTACTTGATA
10020181 GAACTTGTAACATTGTGTTTCTCATTCTTCCTTGTTTGGTTGCTCATAAAATTGAGGGAAAATGA
1 GAACTTGTAACATTGTGTTTCTCATTCTTCCTTGTTTGGTTGCTCATAAAATTGAGGGAAAATGA
*
10020246 GTATTTAACTACTTGATG
66 GTATTTAACTACTTGATA
10020264 GAACTTGTAACATTGTGTTTCTCATTCT
1 GAACTTGTAACATTGTGTTTCTCATTCT
10020292 AGTATAGTCA
Statistics
Matches: 109, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 109 1.00
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.42
Consensus pattern (83 bp):
GAACTTGTAACATTGTGTTTCTCATTCTTCCTTGTTTGGTTGCTCATAAAATTGAGGGAAAATGA
GTATTTAACTACTTGATA
Found at i:10028377 original size:20 final size:20
Alignment explanation
Indices: 10028352--10028391 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
10028342 CGTAAAATGA
*
10028352 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
10028372 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
10028392 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:10028381 original size:34 final size:35
Alignment explanation
Indices: 10028337--10028403 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
10028327 CAGTAAAATA
*
10028337 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
10028371 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
10028404 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:10028407 original size:14 final size:15
Alignment explanation
Indices: 10028331--10028407 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
10028321 GATTGCCAGT
* *
10028331 AAAAT-ATTTTCCGT
1 AAAATGATTTTCTGG
10028345 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
10028359 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
10028379 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
10028394 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
10028408 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 24 0.48
15 12 0.24
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:10028843 original size:13 final size:13
Alignment explanation
Indices: 10028825--10028852 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
10028815 ATTCTTTCTC
10028825 TATTTATGAAGTT
1 TATTTATGAAGTT
10028838 TATTTATGAAGTT
1 TATTTATGAAGTT
10028851 TA
1 TA
10028853 CTTGTACAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (13 bp):
TATTTATGAAGTT
Found at i:10030248 original size:12 final size:12
Alignment explanation
Indices: 10030231--10030256 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10030221 TTTTCCAGAA
10030231 AACATTATATCG
1 AACATTATATCG
10030243 AACATTATATCG
1 AACATTATATCG
10030255 AA
1 AA
10030257 TACACAAACG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (12 bp):
AACATTATATCG
Found at i:10030985 original size:18 final size:18
Alignment explanation
Indices: 10030962--10031019 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
10030952 ATTTGAAGGA
10030962 ATGAAGGGAGAAGAATGG
1 ATGAAGGGAGAAGAATGG
* *** *
10030980 ATGAAGGAAGCTTACTGG
1 ATGAAGGGAGAAGAATGG
*
10030998 ATGAAGGGAGAAGAATGC
1 ATGAAGGGAGAAGAATGG
10031016 ATGA
1 ATGA
10031020 GAGCTTTAGG
Statistics
Matches: 29, Mismatches: 11, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.41, C:0.05, G:0.38, T:0.16
Consensus pattern (18 bp):
ATGAAGGGAGAAGAATGG
Found at i:10031994 original size:9 final size:9
Alignment explanation
Indices: 10031980--10032055 Score: 64
Period size: 9 Copynumber: 8.4 Consensus size: 9
10031970 TTTGGTTAAA
10031980 AATTAACCG
1 AATTAACCG
**
10031989 AATTAACAA
1 AATTAACCG
*
10031998 AATTATCCG
1 AATTAACCG
*
10032007 AATTACCCG
1 AATTAACCG
*
10032016 AATTAACCA
1 AATTAACCG
* *
10032025 AATTACCCA
1 AATTAACCG
10032034 AATT-ACTCG
1 AATTAAC-CG
*
10032043 AATTACCCG
1 AATTAACCG
10032052 AATT
1 AATT
10032056 GAATCCCTAC
Statistics
Matches: 53, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
8 1 0.02
9 51 0.96
10 1 0.02
ACGTcount: A:0.43, C:0.24, G:0.07, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:10032001 original size:18 final size:18
Alignment explanation
Indices: 10031978--10032049 Score: 74
Period size: 18 Copynumber: 4.0 Consensus size: 18
10031968 TTTTTGGTTA
*
10031978 AAAATTAACCGAATTAAC
1 AAAATTAACCGAATTACC
*
10031996 AAAATTATCCGAATTACC
1 AAAATTAACCGAATTACC
** *
10032014 CGAATTAACCAAATTACC
1 AAAATTAACCGAATTACC
*
10032032 CAAATT-ACTCGAATTACC
1 AAAATTAAC-CGAATTACC
10032050 CGAATTGAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
17 2 0.04
18 43 0.96
ACGTcount: A:0.46, C:0.24, G:0.06, T:0.25
Consensus pattern (18 bp):
AAAATTAACCGAATTACC
Found at i:10032018 original size:27 final size:27
Alignment explanation
Indices: 10031979--10032047 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 27
10031969 TTTTGGTTAA
* *
10031979 AAATTAACCGAATTAACAAAATTATCC
1 AAATTACCCGAATTAACAAAATTACCC
* *
10032006 GAATTACCCGAATTAACCAAATTACCC
1 AAATTACCCGAATTAACAAAATTACCC
*
10032033 AAATTACTCGAATTA
1 AAATTACCCGAATTA
10032048 CCCGAATTGA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.46, C:0.22, G:0.06, T:0.26
Consensus pattern (27 bp):
AAATTACCCGAATTAACAAAATTACCC
Found at i:10036819 original size:39 final size:39
Alignment explanation
Indices: 10036768--10036868 Score: 152
Period size: 40 Copynumber: 2.6 Consensus size: 39
10036758 ATATATTTAT
*
10036768 TTTTTTAATTTTAAAATATTTTTA-CATAC-TTTTTAAA
1 TTTTTTAATTTTAAAATATTTTTATAATACTTTTTTAAA
10036805 TTTTTTAAAATTTTAAAATATTTTTATAATACTTTTTTTAAA
1 TTTTTT--AATTTTAAAATATTTTTATAATAC-TTTTTTAAA
10036847 TTTTTTAATTTTAAAATATTTT
1 TTTTTTAATTTTAAAATATTTT
10036869 AAAATAAAAA
Statistics
Matches: 58, Mismatches: 1, Indels: 7
0.88 0.02 0.11
Matches are distributed among these distances:
37 6 0.10
39 18 0.31
40 20 0.34
42 14 0.24
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (39 bp):
TTTTTTAATTTTAAAATATTTTTATAATACTTTTTTAAA
Found at i:10036835 original size:11 final size:10
Alignment explanation
Indices: 10036775--10036874 Score: 68
Period size: 10 Copynumber: 10.1 Consensus size: 10
10036765 TATTTTTTTA
*
10036775 ATTTTAAAAT
1 ATTTTTAAAT
*
10036785 ATTTTTACAT
1 ATTTTTAAAT
10036795 ACTTTTTAAAT
1 A-TTTTTAAAT
10036806 -TTTTTAAA-
1 ATTTTTAAAT
*
10036814 ATTTTAAAAT
1 ATTTTTAAAT
10036824 ATTTTTATAAT
1 ATTTTTA-AAT
10036835 ACTTTTTTTAAAT
1 A---TTTTTAAAT
10036848 -TTTTT--A-
1 ATTTTTAAAT
*
10036854 ATTTTAAAAT
1 ATTTTTAAAT
*
10036864 ATTTTAAAAT
1 ATTTTTAAAT
10036874 A
1 A
10036875 AAAATGGGCC
Statistics
Matches: 73, Mismatches: 6, Indels: 22
0.72 0.06 0.22
Matches are distributed among these distances:
7 5 0.07
9 21 0.29
10 26 0.36
11 12 0.16
13 3 0.04
14 6 0.08
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (10 bp):
ATTTTTAAAT
Found at i:10036857 original size:40 final size:37
Alignment explanation
Indices: 10036768--10036874 Score: 151
Period size: 39 Copynumber: 2.8 Consensus size: 37
10036758 ATATATTTAT
*
10036768 TTTTTTAATTTTAAAATATTTTTACATACTTTTTAAA
1 TTTTTTAATTTTAAAATATTTTTAAATACTTTTTAAA
10036805 TTTTTTAAAATTTTAAAATATTTTTATAATACTTTTTTTAAA
1 TTTTTT--AATTTTAAAATATTTTTA-AATAC--TTTTTAAA
*
10036847 TTTTTTAATTTTAAAATATTTTAAAATA
1 TTTTTTAATTTTAAAATATTTTTAAATA
10036875 AAAATGGGCC
Statistics
Matches: 63, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
37 6 0.10
39 22 0.35
40 21 0.33
42 14 0.22
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (37 bp):
TTTTTTAATTTTAAAATATTTTTAAATACTTTTTAAA
Found at i:10040030 original size:40 final size:42
Alignment explanation
Indices: 10039986--10040067 Score: 114
Period size: 40 Copynumber: 2.0 Consensus size: 42
10039976 GATAAAGCAG
10039986 GAAAACGCTTCCTCAAGGAAGCGC-TT-TGTCCACGTGGACA
1 GAAAACGCTTCCTCAAGGAAGCGCTTTGTGTCCACGTGGACA
** **
10040026 GAAAACGCTTCCTTGAGGGCGCGCTTTGTGTCCACGTGGACA
1 GAAAACGCTTCCTCAAGGAAGCGCTTTGTGTCCACGTGGACA
10040068 AAGCGCTTCC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
40 20 0.56
41 2 0.06
42 14 0.39
ACGTcount: A:0.23, C:0.27, G:0.28, T:0.22
Consensus pattern (42 bp):
GAAAACGCTTCCTCAAGGAAGCGCTTTGTGTCCACGTGGACA
Found at i:10040233 original size:22 final size:22
Alignment explanation
Indices: 10040208--10040264 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 22
10040198 TTAGGGTTTC
10040208 TTAATTAAATTAATTATAAATT-
1 TTAA-TAAATTAATTATAAATTA
10040230 TTAA-AAA--AATTATAAATTA
1 TTAATAAATTAATTATAAATTA
* *
10040249 TTTATAAATTATTTAT
1 TTAATAAATTAATTAT
10040265 TAAGTCTAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
18 11 0.38
19 3 0.10
20 6 0.21
22 9 0.31
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TTAATAAATTAATTATAAATTA
Found at i:10041033 original size:96 final size:95
Alignment explanation
Indices: 10040829--10041136 Score: 377
Period size: 95 Copynumber: 3.3 Consensus size: 95
10040819 AACAACTAGT
* *
10040829 TTTATTTGATTTTTTCTTAAAAACCCTAAATACTAAACCCCAA-CTAAATTTTTTAAAATTTATA
1 TTTATTTGATTTTTTCTTAAAAACCCTAAACACTAAACCCTAATCT-AATTTTTTAAAATTTATA
*
10040893 ATTAATTTAATCAAGTAACTCTAAACCCTAA
65 ATTAATTTAATCAAGTAACCCTAAACCCTAA
* * *
10040924 TTTATTTG-TTTTTTCTTTAAAAACCCTAAACACTAAACCCTAATCTATTTTTTTTGAAGTTTAT
1 TTTATTTGATTTTTTC-TTAAAAACCCTAAACACTAAACCCTAATCTA-ATTTTTTAAAATTTAT
*
10040988 AATTAATTTACTCAAGTAACCCTAAACCC-AA
64 AATTAATTTAATCAAGTAACCCTAAACCCTAA
* *
10041019 TTTATTTGATTTTTTCTTAAAAA---T---CA-TAAACACTAATCTAATTTTTTAAAATTTGTAA
1 TTTATTTGATTTTTTCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTAAAATTTATAA
* * *
10041077 TTAATTTAATTAAGAAACCCTAAACCCTTA
66 TTAATTTAATCAAGTAACCCTAAACCCTAA
* *
10041107 TTTATTTAATTGTTTCCTT-AAAACCCTAAA
1 TTTATTTGATT-TTTTCTTAAAAACCCTAAA
10041137 ATCTAAAAAC
Statistics
Matches: 183, Mismatches: 18, Indels: 25
0.81 0.08 0.11
Matches are distributed among these distances:
87 38 0.21
88 28 0.15
89 8 0.04
91 1 0.01
92 1 0.01
94 7 0.04
95 51 0.28
96 49 0.27
ACGTcount: A:0.38, C:0.16, G:0.03, T:0.43
Consensus pattern (95 bp):
TTTATTTGATTTTTTCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTAAAATTTATAA
TTAATTTAATCAAGTAACCCTAAACCCTAA
Found at i:10042314 original size:22 final size:23
Alignment explanation
Indices: 10042266--10042313 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 23
10042256 ATTAAATTTT
*
10042266 AAAATTTGAAATATAAAAAATTA
1 AAAATTTGAAATATAAAAAATAA
*
10042289 AAAATTTTAAA-AT-AAAAATAA
1 AAAATTTGAAATATAAAAAATAA
10042310 AAAA
1 AAAA
10042314 AAGAGGGAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 11 0.48
22 2 0.09
23 10 0.43
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (23 bp):
AAAATTTGAAATATAAAAAATAA
Found at i:10042314 original size:23 final size:23
Alignment explanation
Indices: 10042266--10042315 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
10042256 ATTAAATTTT
**
10042266 AAAATTTGAAATATAAAAAATTA
1 AAAATTTGAAATATAAAAAAAAA
*
10042289 AAAATTTTAAA-ATAAAAATAAAA
1 AAAATTTGAAATATAAAAA-AAAA
10042312 AAAA
1 AAAA
10042316 GAGGGAAGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (23 bp):
AAAATTTGAAATATAAAAAAAAA
Found at i:10046332 original size:21 final size:21
Alignment explanation
Indices: 10046308--10046361 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
10046298 CTATAAATTT
*
10046308 TTTTGTAAATTTTATT-TATAA
1 TTTT-TAAATTTTATTGAATAA
10046329 TTTTTATAATTTT-TTGAATAA
1 TTTTTA-AATTTTATTGAATAA
10046350 -TTTTAAATTTTA
1 TTTTTAAATTTTA
10046362 AAAGGGCTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
19 6 0.21
20 9 0.31
21 14 0.48
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (21 bp):
TTTTTAAATTTTATTGAATAA
Found at i:10048895 original size:24 final size:24
Alignment explanation
Indices: 10048856--10048926 Score: 97
Period size: 24 Copynumber: 2.9 Consensus size: 24
10048846 CCGGTGCTCT
10048856 CTATTAAAGTGCTATTCGGAGCTTC
1 CTATT-AAGTGCTATTCGGAGCTTC
* *
10048881 CTATTAAGTGTTATTCGGAGCTTT
1 CTATTAAGTGCTATTCGGAGCTTC
* *
10048905 CTGTTAAGTGCTCTTCGGAGCT
1 CTATTAAGTGCTATTCGGAGCT
10048927 ACCCAATATA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
24 36 0.88
25 5 0.12
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.39
Consensus pattern (24 bp):
CTATTAAGTGCTATTCGGAGCTTC
Found at i:10052747 original size:29 final size:30
Alignment explanation
Indices: 10052688--10052745 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
10052678 TCCGAGCCTT
*
10052688 GGGGAAAAAATGTAATTATGTAAAAGTTTA
1 GGGGAAAAAATGTAATTATGAAAAAGTTTA
* * *
10052718 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGAAAAAATGTAATTATGAAAAAGTT
10052746 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.43, C:0.02, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGAAAAAATGTAATTATGAAAAAGTTTA
Found at i:10052975 original size:13 final size:13
Alignment explanation
Indices: 10052957--10052988 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
10052947 TTTCCAGCAA
10052957 TTATGAATTTATT
1 TTATGAATTTATT
10052970 TTATGAATTTATT
1 TTATGAATTTATT
*
10052983 TGATGA
1 TTATGA
10052989 TGATCCGAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:10053196 original size:50 final size:50
Alignment explanation
Indices: 10053083--10053324 Score: 288
Period size: 50 Copynumber: 4.7 Consensus size: 50
10053073 GTTTGGGTAA
* *
10053083 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
* * *
10053139 AGAGGTCCCCTGTAAAACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * * *
10053189 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
10053239 AGAGATCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
*
10053289 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGC
10053325 TTTGGCATGT
Statistics
Matches: 164, Mismatches: 20, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 89 0.54
51 30 0.18
52 1 0.01
53 3 0.02
55 2 0.01
56 38 0.23
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:10053277 original size:100 final size:103
Alignment explanation
Indices: 10053083--10053332 Score: 346
Period size: 100 Copynumber: 2.4 Consensus size: 103
10053073 GTTTGGGTAA
*
10053083 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGATCCC
* *
10053148 CTGTAAAACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAAACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
10053189 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGATCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGATCCCCTA
*
10053251 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAAACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
10053289 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
10053333 GTTATTATCA
Statistics
Matches: 131, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
99 1 0.01
100 49 0.37
101 39 0.30
105 2 0.02
106 40 0.31
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGATCCCCTA
TAAAACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:10060469 original size:25 final size:25
Alignment explanation
Indices: 10060420--10060470 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
10060410 TCTTCCAAGT
* **
10060420 TGAATAATGAGAAGCTCATGCGAGC
1 TGAATAACGAGAAGCTCATAAGAGC
*
10060445 TGAATAACGGGAAGCTCATAAGAGC
1 TGAATAACGAGAAGCTCATAAGAGC
10060470 T
1 T
10060471 ATGGTGTGTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.37, C:0.16, G:0.27, T:0.20
Consensus pattern (25 bp):
TGAATAACGAGAAGCTCATAAGAGC
Found at i:10088621 original size:47 final size:47
Alignment explanation
Indices: 10088552--10088645 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
10088542 GCCCTCCTAA
*
10088552 TTTCTGAGAATACCAAGCTGAAATGTTATCGTATGGCCAGAACATGT
1 TTTCTGAGAATACCAAGCTGAAATGTTACCGTATGGCCAGAACATGT
10088599 TTTCTGAGAATACCAAGCTGAAATGTTACCGTATGGCCAGAACATGT
1 TTTCTGAGAATACCAAGCTGAAATGTTACCGTATGGCCAGAACATGT
10088646 AAAACCGGAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (47 bp):
TTTCTGAGAATACCAAGCTGAAATGTTACCGTATGGCCAGAACATGT
Found at i:10096479 original size:15 final size:15
Alignment explanation
Indices: 10096459--10096494 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
10096449 CTCATACAAA
10096459 AAAAAGAAAAAAAAG
1 AAAAAGAAAAAAAAG
10096474 AAAAAGAAAAAAAAG
1 AAAAAGAAAAAAAAG
*
10096489 ACAAAG
1 AAAAAG
10096495 GAATTATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.83, C:0.03, G:0.14, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAAAAAAG
Found at i:10103125 original size:31 final size:31
Alignment explanation
Indices: 10103089--10103150 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
10103079 TAAATAATCA
10103089 ATGATGATTTTATACATTTTTGTACTTATTT
1 ATGATGATTTTATACATTTTTGTACTTATTT
10103120 ATGATGATTTTATACATTTTTGTACTTATTT
1 ATGATGATTTTATACATTTTTGTACTTATTT
10103151 TCTCTCTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.26, C:0.06, G:0.10, T:0.58
Consensus pattern (31 bp):
ATGATGATTTTATACATTTTTGTACTTATTT
Found at i:10103964 original size:27 final size:27
Alignment explanation
Indices: 10103926--10103981 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
10103916 AATTTATTTC
10103926 AACTACTATATCCAACAAAATGAAAAA
1 AACTACTATATCCAACAAAATGAAAAA
10103953 AACTACTATATCCAACAAAATGAAAAA
1 AACTACTATATCCAACAAAATGAAAAA
10103980 AA
1 AA
10103982 TGATCTGCAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.61, C:0.18, G:0.04, T:0.18
Consensus pattern (27 bp):
AACTACTATATCCAACAAAATGAAAAA
Found at i:10106696 original size:31 final size:31
Alignment explanation
Indices: 10106658--10106723 Score: 132
Period size: 31 Copynumber: 2.1 Consensus size: 31
10106648 CTAGGAAAAG
10106658 TAAAGATCATTTTAGTATAATATGGTGCAGA
1 TAAAGATCATTTTAGTATAATATGGTGCAGA
10106689 TAAAGATCATTTTAGTATAATATGGTGCAGA
1 TAAAGATCATTTTAGTATAATATGGTGCAGA
10106720 TAAA
1 TAAA
10106724 TACTCTACAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.41, C:0.06, G:0.18, T:0.35
Consensus pattern (31 bp):
TAAAGATCATTTTAGTATAATATGGTGCAGA
Found at i:10120161 original size:3 final size:3
Alignment explanation
Indices: 10120153--10120181 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
10120143 AACATAATGC
10120153 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
10120182 AGAAAAGGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:10128934 original size:9 final size:9
Alignment explanation
Indices: 10128920--10128945 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
10128910 GCTCAAGCAA
10128920 GCTTAATTG
1 GCTTAATTG
10128929 GCTTAATTG
1 GCTTAATTG
10128938 GCTTAATT
1 GCTTAATT
10128946 AGGTATGGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.12, G:0.19, T:0.46
Consensus pattern (9 bp):
GCTTAATTG
Found at i:10129384 original size:21 final size:21
Alignment explanation
Indices: 10129360--10129399 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10129350 TTCTACGATG
*
10129360 TGAATTGGATTGAATTGAGTA
1 TGAATTGGATTAAATTGAGTA
*
10129381 TGAATTGTATTAAATTGAG
1 TGAATTGGATTAAATTGAG
10129400 CTAAATTTAC
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:0.35, C:0.00, G:0.25, T:0.40
Consensus pattern (21 bp):
TGAATTGGATTAAATTGAGTA
Found at i:10129879 original size:26 final size:26
Alignment explanation
Indices: 10129849--10129928 Score: 94
Period size: 26 Copynumber: 3.1 Consensus size: 26
10129839 CTTATGAGTG
10129849 TCCTGA-TATATGGCTTTTCGTGAGCT
1 TCCTGATTA-ATGGCTTTTCGTGAGCT
*
10129875 TCCTGATTAAAGGCTCTTT-GTGAGCT
1 TCCTGATTAATGGCT-TTTCGTGAGCT
* *
10129901 TCTTGATTAATGGCTTTCCG-GAGCT
1 TCCTGATTAATGGCTTTTCGTGAGCT
10129926 TCC
1 TCC
10129929 CGATATGGCT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
25 9 0.20
26 32 0.70
27 5 0.11
ACGTcount: A:0.16, C:0.21, G:0.23, T:0.40
Consensus pattern (26 bp):
TCCTGATTAATGGCTTTTCGTGAGCT
Found at i:10129982 original size:73 final size:73
Alignment explanation
Indices: 10129896--10130036 Score: 176
Period size: 73 Copynumber: 1.9 Consensus size: 73
10129886 GGCTCTTTGT
** * * *
10129896 GAGCTTCTTGATTAATGGCTTTCCGGAGCTTCCCGATA-TGGCTCACTTGAACTTCCTAATATAT
1 GAGCTTCCCGATTAATGGCTTTCCAGAGCTACCCGATATTGGCTCACATGAACTTCCTAAT-TAT
10129960 GGCTATCCC
65 GGCTATCCC
* * * * *
10129969 GAGCTTCCCGATTAATGGCTTTTCAGAGCTACCCGTTATTGGCTCGCATGAGCTTCTTAATTATG
1 GAGCTTCCCGATTAATGGCTTTCCAGAGCTACCCGATATTGGCTCACATGAACTTCCTAATTATG
10130034 GCT
66 GCT
10130037 CTTATGAGTT
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
73 39 0.68
74 18 0.32
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.35
Consensus pattern (73 bp):
GAGCTTCCCGATTAATGGCTTTCCAGAGCTACCCGATATTGGCTCACATGAACTTCCTAATTATG
GCTATCCC
Found at i:10137310 original size:15 final size:16
Alignment explanation
Indices: 10137277--10137310 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
10137267 TACTATAGGG
*
10137277 TATTAAAATAAATAAA
1 TATTAAAATAAACAAA
10137293 TATTAAAA-AAACAAA
1 TATTAAAATAAACAAA
10137308 TAT
1 TAT
10137311 CAATTTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (16 bp):
TATTAAAATAAACAAA
Found at i:10137908 original size:20 final size:19
Alignment explanation
Indices: 10137876--10137914 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
10137866 GAGATAAATT
*
10137876 AAAAAAGTGATTAAGACAA
1 AAAAAAGTGATTAAAACAA
*
10137895 AAAAAATTGTATTAAAACAA
1 AAAAAAGTG-ATTAAAACAA
10137915 TTACAATTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.64, C:0.05, G:0.10, T:0.21
Consensus pattern (19 bp):
AAAAAAGTGATTAAAACAA
Found at i:10149390 original size:3 final size:3
Alignment explanation
Indices: 10149382--10149408 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
10149372 CTTTAACTTT
10149382 GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA
10149409 TTGTAAGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:10152406 original size:3 final size:3
Alignment explanation
Indices: 10152398--10152428 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
10152388 CAAACTCACC
10152398 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
10152429 CTAAGTTTCG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:10152912 original size:31 final size:30
Alignment explanation
Indices: 10152861--10152924 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 30
10152851 ACTGAGTTTA
* * *
10152861 TATTATTTTTGTTTATAAAAATATAGTTAT
1 TATTATTTTTGTATATAAAAATAAAATTAT
*
10152891 TATTTTTTATTGTATATAAAAATAAAATTAT
1 TATTATTT-TTGTATATAAAAATAAAATTAT
10152922 TAT
1 TAT
10152925 AAGCGATAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 7 0.24
31 22 0.76
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (30 bp):
TATTATTTTTGTATATAAAAATAAAATTAT
Found at i:10159266 original size:21 final size:22
Alignment explanation
Indices: 10159242--10159293 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
10159232 TAGCCAGTAC
*
10159242 AAATAACAA-AAACAATAGC-AA
1 AAATAACAACAAA-AACAGCAAA
10159263 AAATAACAACAAAAACAGCAGAA
1 AAATAACAACAAAAACAGCA-AA
10159286 AAATAACA
1 AAATAACA
10159294 GCACCAAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 14 0.52
22 3 0.11
23 10 0.37
ACGTcount: A:0.71, C:0.15, G:0.06, T:0.08
Consensus pattern (22 bp):
AAATAACAACAAAAACAGCAAA
Found at i:10159287 original size:23 final size:24
Alignment explanation
Indices: 10159246--10159293 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
10159236 CAGTACAAAT
*
10159246 AACAAAAACAATAGCAAAAATAAC
1 AACAAAAACAACAGCAAAAATAAC
*
10159270 AACAAAAACAGCAG-AAAAATAAC
1 AACAAAAACAACAGCAAAAATAAC
10159293 A
1 A
10159294 GCACCAAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.71, C:0.17, G:0.06, T:0.06
Consensus pattern (24 bp):
AACAAAAACAACAGCAAAAATAAC
Found at i:10166493 original size:46 final size:46
Alignment explanation
Indices: 10166426--10166564 Score: 233
Period size: 46 Copynumber: 3.0 Consensus size: 46
10166416 CATGGCAAAA
*
10166426 TGTGAAAAGTAGGTATGGTGTTTCAATGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGT
* *
10166472 TGTGAAAAGTAGGTATGGTGTTTCAGTAAAGAAAACCATACTGATT
1 TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGT
* *
10166518 TGTGAAAAGTAGGTATGGTATTTCCGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGT
10166564 T
1 T
10166565 ATAGTATTGT
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 86 1.00
ACGTcount: A:0.36, C:0.09, G:0.25, T:0.29
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGT
Found at i:10167000 original size:33 final size:33
Alignment explanation
Indices: 10166963--10167070 Score: 96
Period size: 33 Copynumber: 3.3 Consensus size: 33
10166953 TGGCCCTACC
* *
10166963 ATGGTCTTACATTTGTCGTGCCATAACCTAGTT
1 ATGGTCTTACATTTGTCGTGACATAACCCAGTT
* * *
10166996 ATGGTCTT--A-TTATCAGAATGACATAGCCCAGCT
1 ATGGTCTTACATTTGTC-G--TGACATAACCCAGTT
* * *
10167029 ATGGTCTTACATTTGTAGTGTCATAACCCAATT
1 ATGGTCTTACATTTGTCGTGACATAACCCAGTT
10167062 ATGGTCTTA
1 ATGGTCTTA
10167071 TCATCAGAAT
Statistics
Matches: 58, Mismatches: 11, Indels: 12
0.72 0.14 0.15
Matches are distributed among these distances:
30 4 0.07
31 2 0.03
33 47 0.81
35 2 0.03
36 3 0.05
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (33 bp):
ATGGTCTTACATTTGTCGTGACATAACCCAGTT
Found at i:10167040 original size:66 final size:66
Alignment explanation
Indices: 10166963--10167104 Score: 221
Period size: 66 Copynumber: 2.2 Consensus size: 66
10166953 TGGCCCTACC
* * * * *
10166963 ATGGTCTTACATTTGTCGTGCCATAACCTAGTTATGGTCTTATTATCAGAATGACATAGCCCAGC
1 ATGGTCTTACATTTGTAGTGCCATAACCCAATTATGGTCTTATCATCAGAATGACATAGCCCAAC
10167028 T
66 T
* *
10167029 ATGGTCTTACATTTGTAGTGTCATAACCCAATTATGGTCTTATCATCAGAATGTCATAGCCCAAC
1 ATGGTCTTACATTTGTAGTGCCATAACCCAATTATGGTCTTATCATCAGAATGACATAGCCCAAC
10167094 T
66 T
10167095 ATGGTCTTAC
1 ATGGTCTTAC
10167105 TAGCCCAACT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 69 1.00
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (66 bp):
ATGGTCTTACATTTGTAGTGCCATAACCCAATTATGGTCTTATCATCAGAATGACATAGCCCAAC
T
Found at i:10167084 original size:33 final size:33
Alignment explanation
Indices: 10166995--10167103 Score: 121
Period size: 33 Copynumber: 3.3 Consensus size: 33
10166985 ATAACCTAGT
* * * *
10166995 TATGGTCTTATTATCAGAATGACATAGCCCAGC
1 TATGGTCTTATCATCAGAATGTCATAACCCAAC
** * *
10167028 TATGGTCTTA-CATTTGTAGTGTCATAACCCAAT
1 TATGGTCTTATCATCAG-AATGTCATAACCCAAC
*
10167061 TATGGTCTTATCATCAGAATGTCATAGCCCAAC
1 TATGGTCTTATCATCAGAATGTCATAACCCAAC
10167094 TATGGTCTTA
1 TATGGTCTTA
10167104 CTAGCCCAAC
Statistics
Matches: 61, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
32 3 0.05
33 54 0.89
34 4 0.07
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (33 bp):
TATGGTCTTATCATCAGAATGTCATAACCCAAC
Found at i:10167110 original size:20 final size:20
Alignment explanation
Indices: 10167085--10167124 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
10167075 CAGAATGTCA
10167085 TAGCCCAACTATGGTCTTAC
1 TAGCCCAACTATGGTCTTAC
10167105 TAGCCCAACTATGGTCTTAC
1 TAGCCCAACTATGGTCTTAC
10167125 ATTTAAACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.30
Consensus pattern (20 bp):
TAGCCCAACTATGGTCTTAC
Found at i:10168730 original size:50 final size:50
Alignment explanation
Indices: 10168606--10168854 Score: 266
Period size: 50 Copynumber: 4.8 Consensus size: 50
10168596 GATAATAACA
* * ** * *
10168606 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
10168657 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * * * *
10168707 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGAACCTCTCGTCTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
10168757 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
10168812 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
10168855 TTACCCAAAT
Statistics
Matches: 166, Mismatches: 25, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
49 1 0.01
50 89 0.54
51 33 0.20
53 2 0.01
54 1 0.01
55 1 0.01
56 39 0.23
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:10168783 original size:100 final size:104
Alignment explanation
Indices: 10168605--10168847 Score: 334
Period size: 100 Copynumber: 2.3 Consensus size: 104
10168595 TGATAATAAC
*** *
10168605 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACAT-GGAACCTCTCGTGATAGTGCCCATGCCATG
* *
10168670 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
10168707 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGAACCTCTCGT-CTCAGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGAACCTCTCGTGAT-AGTGCCCATGCCATG
10168770 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
*
10168812 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGG
10168848 GATCTCTTTA
Statistics
Matches: 125, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 52 0.42
101 32 0.26
103 3 0.02
104 1 0.01
105 2 0.02
106 34 0.27
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGAACCTCTCGTGATAGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:10168970 original size:13 final size:13
Alignment explanation
Indices: 10168949--10168980 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
10168939 GCTTGGATCA
*
10168949 TCATCAAATAAAT
1 TCATAAAATAAAT
10168962 TCATAAAATAAAT
1 TCATAAAATAAAT
10168975 TCATAA
1 TCATAA
10168981 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:10183153 original size:18 final size:18
Alignment explanation
Indices: 10183118--10183155 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
10183108 TATTTATATT
10183118 TTAAAAATTAAGAATTTAA
1 TTAAAAATTAAG-ATTTAA
10183137 TTAAAAATTATAG-TTTAA
1 TTAAAAATTA-AGATTTAA
10183155 T
1 T
10183156 CATTATTGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 10 0.56
20 2 0.11
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TTAAAAATTAAGATTTAA
Found at i:10199287 original size:21 final size:21
Alignment explanation
Indices: 10199243--10199283 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
10199233 CATATACGAA
* *
10199243 AAATATAACCTAAAGTAATAT
1 AAATACAACATAAAGTAATAT
10199264 AAATACAACATAAA-TAATAT
1 AAATACAACATAAAGTAATAT
10199284 TAAAAAGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.61, C:0.10, G:0.02, T:0.27
Consensus pattern (21 bp):
AAATACAACATAAAGTAATAT
Found at i:10199394 original size:30 final size:30
Alignment explanation
Indices: 10199353--10199412 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
10199343 ATTTAACACA
* *
10199353 TGAACTTTAATTTGGTACAATTATATATAT
1 TGAAATTTAATTTGATACAATTATATATAT
**
10199383 TGAAATTTAATTTGATGTAATTATATATAT
1 TGAAATTTAATTTGATACAATTATATATAT
10199413 AAAAAATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.48
Consensus pattern (30 bp):
TGAAATTTAATTTGATACAATTATATATAT
Found at i:10199423 original size:30 final size:31
Alignment explanation
Indices: 10199371--10199429 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
10199361 AATTTGGTAC
** *
10199371 AATTATATATATTGAAATTTAATT-TGATGT
1 AATTATATATATAAAAAATTAATTGTGATGT
10199401 AATTATATATATAAAAAATTAATTGTGAT
1 AATTATATATATAAAAAATTAATTGTGAT
10199430 TCAAATGTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (31 bp):
AATTATATATATAAAAAATTAATTGTGATGT
Found at i:10203569 original size:38 final size:39
Alignment explanation
Indices: 10203526--10203639 Score: 162
Period size: 38 Copynumber: 3.0 Consensus size: 39
10203516 TTCACTATTT
* *
10203526 TGTATGAGTCATAAAAATAAGCTTGTTTGTTATGTAAAA
1 TGTATGAGTTATAAAAATAAGTTTGTTTGTTATGTAAAA
*
10203565 -GTATGAGTTATAAAAGTAAGTTTGTTTGTTATG-AAAA
1 TGTATGAGTTATAAAAATAAGTTTGTTTGTTATGTAAAA
*
10203602 TGTACGAGTTA-AAAAAGTAAGTTTGTTTGTTATGTAAA
1 TGTATGAGTTATAAAAA-TAAGTTTGTTTGTTATGTAAA
10203640 GGAGATTCTT
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
37 8 0.12
38 56 0.84
39 3 0.04
ACGTcount: A:0.38, C:0.03, G:0.20, T:0.39
Consensus pattern (39 bp):
TGTATGAGTTATAAAAATAAGTTTGTTTGTTATGTAAAA
Found at i:10207858 original size:20 final size:20
Alignment explanation
Indices: 10207833--10207872 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
10207823 CATTTCATTT
*
10207833 ATGCAATTGCTTTATCCATA
1 ATGCAATTACTTTATCCATA
10207853 ATGCAATTACTTTATCCATA
1 ATGCAATTACTTTATCCATA
10207873 CCATATTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.40
Consensus pattern (20 bp):
ATGCAATTACTTTATCCATA
Found at i:10208132 original size:41 final size:41
Alignment explanation
Indices: 10208012--10208148 Score: 142
Period size: 37 Copynumber: 3.5 Consensus size: 41
10208002 ACACACCAGT
* *
10208012 TTGGCACCCAATGCCTCATCGGA-TAAT-TCGAAGTAATAAA
1 TTGGCACCCAGTGCCTCATCGAATTAATCT-GAAGTAATAAA
* * * *
10208052 TTGACACCCAGTGTCTCATC-AGTTAAACTG-A--AATAAA
1 TTGGCACCCAGTGCCTCATCGAATTAATCTGAAGTAATAAA
*
10208089 TTGGCACCCAGTGCCTTATCGAATTAATCTGAAGTAATAAA
1 TTGGCACCCAGTGCCTCATCGAATTAATCTGAAGTAATAAA
* *
10208130 TTGGCACACAGTGTCTCAT
1 TTGGCACCCAGTGCCTCAT
10208149 TGACTCGAAG
Statistics
Matches: 77, Mismatches: 14, Indels: 11
0.75 0.14 0.11
Matches are distributed among these distances:
37 23 0.30
38 8 0.10
39 2 0.03
40 21 0.27
41 23 0.30
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.28
Consensus pattern (41 bp):
TTGGCACCCAGTGCCTCATCGAATTAATCTGAAGTAATAAA
Found at i:10208353 original size:24 final size:24
Alignment explanation
Indices: 10208308--10208354 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
10208298 TATATATACC
10208308 AATTCAATCAATATAAATTCAATA
1 AATTCAATCAATATAAATTCAATA
10208332 AATTC-ATCACATACTAAA-TCAAT
1 AATTCAATCA-ATA-TAAATTCAAT
10208355 CCATTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTCAATCAATATAAATTCAATA
Found at i:10209032 original size:13 final size:14
Alignment explanation
Indices: 10209011--10209084 Score: 55
Period size: 13 Copynumber: 5.2 Consensus size: 14
10209001 ATTTTTCTCC
10209011 TTCTTTCTTTCT-T
1 TTCTTTCTTTCTAT
*
10209024 TTTTTTCTTT-TAT
1 TTCTTTCTTTCTAT
*
10209037 TTCTTTCCTTCTCTGT
1 TTCTTT-CTT-TCTAT
*
10209053 TTCGTTTCTTTCT-C
1 TTC-TTTCTTTCTAT
*
10209067 TTCTTCTTTTTCTAT
1 TTCTT-TCTTTCTAT
10209082 TTC
1 TTC
10209085 CATTTCTTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
12 1 0.02
13 17 0.35
14 12 0.25
15 7 0.15
16 8 0.17
17 3 0.06
ACGTcount: A:0.03, C:0.23, G:0.03, T:0.72
Consensus pattern (14 bp):
TTCTTTCTTTCTAT
Found at i:10209146 original size:35 final size:36
Alignment explanation
Indices: 10209107--10209197 Score: 107
Period size: 35 Copynumber: 2.6 Consensus size: 36
10209097 TTTATCATTA
* *
10209107 TAATATAATAATATATATACT-TA-ACTTTTAACTTT
1 TAATATTATAATATATATACTATATA-TTTTAAATTT
*
10209142 TAATATTATAATAT-TATAATATATATTTTAAATTT
1 TAATATTATAATATATATACTATATATTTTAAATTT
*
10209177 AAATATTTATAATATATATAC
1 TAATA-TTATAATATATATAC
10209198 ACTTATGTCG
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
34 5 0.11
35 28 0.60
36 10 0.21
37 4 0.09
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.49
Consensus pattern (36 bp):
TAATATTATAATATATATACTATATATTTTAAATTT
Found at i:10211597 original size:41 final size:41
Alignment explanation
Indices: 10211540--10211645 Score: 194
Period size: 41 Copynumber: 2.6 Consensus size: 41
10211530 AATGAGATAA
*
10211540 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATAT
10211581 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATAT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATAT
*
10211622 TTCGGACTTTACGTCTAGCAGGCT
1 TTCAGACTTTACGTCTAGCAGGCT
10211646 AATTGCCAAT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 63 1.00
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (41 bp):
TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATAT
Found at i:10214585 original size:25 final size:25
Alignment explanation
Indices: 10214513--10214593 Score: 99
Period size: 25 Copynumber: 3.2 Consensus size: 25
10214503 ACTTTAGCGC
* ****
10214513 GCTCTCTGATTATTAGTACACCAGT
1 GCTCTCTGATTATTAGCACGTTGGT
10214538 GCTCTCTGATTATTAGCACGTTGGT
1 GCTCTCTGATTATTAGCACGTTGGT
* *
10214563 GCTCTCTGATTATTAGCATGTTGTT
1 GCTCTCTGATTATTAGCACGTTGGT
10214588 GCTCTC
1 GCTCTC
10214594 CGTTTAGCAC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.17, C:0.22, G:0.20, T:0.41
Consensus pattern (25 bp):
GCTCTCTGATTATTAGCACGTTGGT
Found at i:10214888 original size:14 final size:14
Alignment explanation
Indices: 10214869--10214899 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
10214859 ATATATAGCA
10214869 AGTGATGAAAATTG
1 AGTGATGAAAATTG
10214883 AGTGATGAAAATTG
1 AGTGATGAAAATTG
10214897 AGT
1 AGT
10214900 ATTGTGTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.29
Consensus pattern (14 bp):
AGTGATGAAAATTG
Found at i:10215679 original size:51 final size:51
Alignment explanation
Indices: 10215603--10215703 Score: 166
Period size: 51 Copynumber: 2.0 Consensus size: 51
10215593 CGTGCAGCAA
* * *
10215603 CAACATTATTCAGTCCATCTGATGTTGCAAAATCACCAGCATATTCATCAG
1 CAACATTATCCACTCCATCTAATGTTGCAAAATCACCAGCATATTCATCAG
*
10215654 CAACATTATCCACTCTATCTAATGTTGCAAAATCACCAGCATATTCATCA
1 CAACATTATCCACTCCATCTAATGTTGCAAAATCACCAGCATATTCATCA
10215704 ACAATAACTT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.35, C:0.27, G:0.09, T:0.30
Consensus pattern (51 bp):
CAACATTATCCACTCCATCTAATGTTGCAAAATCACCAGCATATTCATCAG
Found at i:10215949 original size:33 final size:33
Alignment explanation
Indices: 10215874--10215950 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 33
10215864 CCTTTTCCAG
* * * *
10215874 ATCACCTTCACCATCAGATTCTACCCCTTCATC
1 ATCACCCTCCCCATCAGATTCCACCCCTTCAAC
10215907 ATCACCCTCCCCATCA-ACTTCCACCCCTTCAAC
1 ATCACCCTCCCCATCAGA-TTCCACCCCTTCAAC
10215940 ATCACCCTCCC
1 ATCACCCTCCC
10215951 TAGTAGTCAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
32 1 0.03
33 38 0.97
ACGTcount: A:0.23, C:0.51, G:0.01, T:0.25
Consensus pattern (33 bp):
ATCACCCTCCCCATCAGATTCCACCCCTTCAAC
Found at i:10216760 original size:117 final size:117
Alignment explanation
Indices: 10216551--10216761 Score: 341
Period size: 117 Copynumber: 1.8 Consensus size: 117
10216541 GGTAACAAAA
* * * * * *
10216551 ATCAACATCATCGGGACCACTGTCGCATCACAAATTGACAAAACAAACCTTACATTGTGGCACTG
1 ATCAACAACATCGAGACCACTATCGCATCAAAAATCGACAAAACAAACCCTACATTGTGGCACTG
*
10216616 AAATTGCAATAATAAATAACAATTAACCATCTACAATTTTTACAACAGTTTT
66 AAATTGCAATAATAAATAACAAATAACCATCTACAATTTTTACAACAGTTTT
10216668 ATCAACAACATCGAGACCACTATCGCATCAAAAATCGACAAAACAAACCCTACATTGTGGCACTG
1 ATCAACAACATCGAGACCACTATCGCATCAAAAATCGACAAAACAAACCCTACATTGTGGCACTG
* *
10216733 AAATTGCAATAATAAATCATAAATAACCA
66 AAATTGCAATAATAAATAACAAATAACCA
10216762 ACAAATCAAA
Statistics
Matches: 85, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
117 85 1.00
ACGTcount: A:0.43, C:0.23, G:0.10, T:0.24
Consensus pattern (117 bp):
ATCAACAACATCGAGACCACTATCGCATCAAAAATCGACAAAACAAACCCTACATTGTGGCACTG
AAATTGCAATAATAAATAACAAATAACCATCTACAATTTTTACAACAGTTTT
Found at i:10216992 original size:17 final size:16
Alignment explanation
Indices: 10216948--10216984 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
10216938 GAATGCTAAT
10216948 GATTTAGGGATTTAAA
1 GATTTAGGGATTTAAA
*
10216964 GATTTAGGGATTTGAA
1 GATTTAGGGATTTAAA
10216980 GATTT
1 GATTT
10216985 TAAGGATTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.27, T:0.41
Consensus pattern (16 bp):
GATTTAGGGATTTAAA
Found at i:10217633 original size:18 final size:18
Alignment explanation
Indices: 10217602--10217653 Score: 70
Period size: 18 Copynumber: 2.8 Consensus size: 18
10217592 CAAAAATTAT
*
10217602 ATAATTATATATTTTGTA
1 ATAATTTTATATTTTGTA
10217620 AT-ATTTTAATATTTTGTA
1 ATAATTTT-ATATTTTGTA
10217638 ATAAATTTTATATTTT
1 AT-AATTTTATATTTT
10217654 TTTGAATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 4 0.13
18 14 0.47
19 7 0.23
20 5 0.17
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.60
Consensus pattern (18 bp):
ATAATTTTATATTTTGTA
Found at i:10223303 original size:50 final size:50
Alignment explanation
Indices: 10223199--10223388 Score: 177
Period size: 50 Copynumber: 3.7 Consensus size: 50
10223189 AAAGAGATCC
*
10223199 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGGTCT
* *
10223255 CATGTAAGACCATGTCTGGGACATGGCGTTAGCACCGAGATGAGAGG--T
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCT
* * * **
10223303 CATTCGTAAGACCATGTCTAGGACATGGCATGGGCACCGATATGAGAACTCT
1 CA-T-GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCT
* * * * *
10223355 CATTTAAGACCATATTTGGGATATGGCGTTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA
10223389 GTAAAGGAAA
Statistics
Matches: 113, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
48 3 0.03
49 1 0.01
50 69 0.61
51 1 0.01
52 3 0.03
53 3 0.03
55 1 0.01
56 32 0.28
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.26
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCT
Found at i:10223689 original size:20 final size:20
Alignment explanation
Indices: 10223651--10223689 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10223641 TAAGCAAGCA
*
10223651 AGTAAGTAAACAAGTAAGTG
1 AGTAAGTAAACAAGAAAGTG
*
10223671 AGTAAGTAAAGAAGAAAGT
1 AGTAAGTAAACAAGAAAGT
10223690 AAAGATCCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.03, G:0.26, T:0.18
Consensus pattern (20 bp):
AGTAAGTAAACAAGAAAGTG
Found at i:10226681 original size:17 final size:17
Alignment explanation
Indices: 10226659--10226693 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
10226649 GTGCAGTTTT
10226659 AAGCTCATGTGAGCATC
1 AAGCTCATGTGAGCATC
10226676 AAGCTCATGTGAGCATC
1 AAGCTCATGTGAGCATC
10226693 A
1 A
10226694 TGCCTATTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (17 bp):
AAGCTCATGTGAGCATC
Found at i:10237634 original size:17 final size:17
Alignment explanation
Indices: 10237612--10237649 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
10237602 ATTAGGCATA
*
10237612 ATACTTTTCGT-TTATTT
1 ATACTTTT-GTATTAATT
10237629 ATACTTTTGTATTAATT
1 ATACTTTTGTATTAATT
10237646 ATAC
1 ATAC
10237650 ATTGATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.26, C:0.11, G:0.05, T:0.58
Consensus pattern (17 bp):
ATACTTTTGTATTAATT
Found at i:10239931 original size:48 final size:48
Alignment explanation
Indices: 10239860--10239958 Score: 162
Period size: 48 Copynumber: 2.1 Consensus size: 48
10239850 ACTCTACTAT
*
10239860 AGTCATTTCTATACATTCAATGTACTCTCCGGATGGAGGAATACATAG
1 AGTCATTTCTATACATTCAATGTACTCTACGGATGGAGGAATACATAG
* * *
10239908 AGTCATTTCTGTACATTCAATGTACTCTATGGATGGAGGAATGCATAG
1 AGTCATTTCTATACATTCAATGTACTCTACGGATGGAGGAATACATAG
10239956 AGT
1 AGT
10239959 TGAACTTAGT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.32
Consensus pattern (48 bp):
AGTCATTTCTATACATTCAATGTACTCTACGGATGGAGGAATACATAG
Found at i:10240616 original size:2 final size:2
Alignment explanation
Indices: 10240609--10240634 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10240599 AGTCAATCTT
10240609 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
10240635 ATCCCAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10251368 original size:22 final size:25
Alignment explanation
Indices: 10251338--10251389 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
10251328 ATATATATAC
*
10251338 TAAATAAAAT-AA-TAAAATATTAT
1 TAAATAAAATAAATTAAAATATTAA
10251361 TAAA-AAAATCAAATTAAAATATTAA
1 TAAATAAAAT-AAATTAAAATATTAA
10251386 TAAA
1 TAAA
10251390 CTAATATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 5 0.20
23 4 0.16
24 2 0.08
25 14 0.56
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (25 bp):
TAAATAAAATAAATTAAAATATTAA
Found at i:10258774 original size:3 final size:3
Alignment explanation
Indices: 10258766--10258792 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
10258756 TCTACTTTCA
10258766 TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC
10258793 CTAGATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:10266699 original size:12 final size:11
Alignment explanation
Indices: 10266673--10266698 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
10266663 ACCACATTTC
10266673 AAAATTTTTTA
1 AAAATTTTTTA
10266684 AAAATTTTTTA
1 AAAATTTTTTA
10266695 AAAA
1 AAAA
10266699 AAAACCCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
AAAATTTTTTA
Found at i:10277342 original size:2 final size:2
Alignment explanation
Indices: 10277335--10277362 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10277325 ACTAGAACTA
10277335 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
10277363 ATTTAACAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:10285129 original size:19 final size:19
Alignment explanation
Indices: 10285105--10285163 Score: 75
Period size: 19 Copynumber: 3.2 Consensus size: 19
10285095 TCTAATTAAG
*
10285105 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTCATT
* *
10285124 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTCATT
*
10285142 TAATAACTTTATTTTCATT
1 TAATAACTCTATTTTCATT
10285161 TAA
1 TAA
10285164 AATATAAAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
18 15 0.45
19 18 0.55
ACGTcount: A:0.37, C:0.12, G:0.00, T:0.51
Consensus pattern (19 bp):
TAATAACTCTATTTTCATT
Found at i:10285134 original size:18 final size:18
Alignment explanation
Indices: 10285113--10285147 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10285103 AGTAATAACT
*
10285113 CTATTTTAATTTAATAAA
1 CTATTCTAATTTAATAAA
*
10285131 CTATTCTCATTTAATAA
1 CTATTCTAATTTAATAA
10285148 CTTTATTTTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (18 bp):
CTATTCTAATTTAATAAA
Found at i:10285328 original size:82 final size:82
Alignment explanation
Indices: 10285234--10285389 Score: 312
Period size: 82 Copynumber: 1.9 Consensus size: 82
10285224 AATTAAAATG
10285234 GTCTAACATGTTTATGTTATAAGTCTATTAAGAATATATTAAATTTATAAATAGATAAAATAGTT
1 GTCTAACATGTTTATGTTATAAGTCTATTAAGAATATATTAAATTTATAAATAGATAAAATAGTT
10285299 TATGTTTCCATTATTTA
66 TATGTTTCCATTATTTA
10285316 GTCTAACATGTTTATGTTATAAGTCTATTAAGAATATATTAAATTTATAAATAGATAAAATAGTT
1 GTCTAACATGTTTATGTTATAAGTCTATTAAGAATATATTAAATTTATAAATAGATAAAATAGTT
10285381 TATGTTTCC
66 TATGTTTCC
10285390 GTTTTTTTTC
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 74 1.00
ACGTcount: A:0.39, C:0.06, G:0.10, T:0.44
Consensus pattern (82 bp):
GTCTAACATGTTTATGTTATAAGTCTATTAAGAATATATTAAATTTATAAATAGATAAAATAGTT
TATGTTTCCATTATTTA
Found at i:10285539 original size:19 final size:19
Alignment explanation
Indices: 10285478--10285541 Score: 85
Period size: 19 Copynumber: 3.4 Consensus size: 19
10285468 AATTTTTTTA
10285478 AAATTAAAATAGAGTTATT
1 AAATTAAAATAGAGTTATT
* * *
10285497 AAATGAGAATAG-TTTATT
1 AAATTAAAATAGAGTTATT
*
10285515 ACATTAAAATAGAGTTATT
1 AAATTAAAATAGAGTTATT
10285534 AAATTAAA
1 AAATTAAA
10285542 CTATTTTAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
18 14 0.39
19 22 0.61
ACGTcount: A:0.52, C:0.02, G:0.11, T:0.36
Consensus pattern (19 bp):
AAATTAAAATAGAGTTATT
Done.