Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008421.1 Hibiscus syriacus cultivar Beakdansim tig00111201_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: 1159951
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 6
Found at i:832667 original size:95 final size:95
Alignment explanation
Indices: 832504--832701 Score: 378
Period size: 95 Copynumber: 2.1 Consensus size: 95
832494 CAACATGTTA
* *
832504 ATTCTGATAACAACTCATCTGATTATGAAGTGATCTTTCAAGATGATTTCATAGATATTGATAGT
1 ATTCTGATAACAACTCATCTGATTATGAAGTGATCTTTCAAGATGATTTCACAGATATCGATAGT
832569 TCTTTTAATACCGAGAAATCTTGAATTCTG
66 TCTTTTAATACCGAGAAATCTTGAATTCTG
832599 ATTCTGATAACAACTCATCTGATTATGAAGTGATCTTTCAAGATGATTTCACAGATATCGATAGT
1 ATTCTGATAACAACTCATCTGATTATGAAGTGATCTTTCAAGATGATTTCACAGATATCGATAGT
832664 TCTTTTAATACCGAGAAATCTTGAATTCTG
66 TCTTTTAATACCGAGAAATCTTGAATTCTG
832694 ATTCTGAT
1 ATTCTGAT
832702 GAGGAGAATA
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
95 101 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (95 bp):
ATTCTGATAACAACTCATCTGATTATGAAGTGATCTTTCAAGATGATTTCACAGATATCGATAGT
TCTTTTAATACCGAGAAATCTTGAATTCTG
Found at i:833256 original size:83 final size:83
Alignment explanation
Indices: 833117--833421 Score: 556
Period size: 83 Copynumber: 3.7 Consensus size: 83
833107 CTGTGGTTCA
* *
833117 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATACAATGAGCACATTCCTCTTCC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCC
833182 AAATTCAATGATTGATTT
66 AAATTCAATGATTGATTT
* *
833200 TACCAAACCAGATCAGATAACTCAAAGAACACTTACAGAAGATGCTATGAGAACATTCCTCTTCC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCC
833265 AAATTCAATGATTGATTT
66 AAATTCAATGATTGATTT
* *
833283 TACCAAACCAGATCAGATAACTCAAATAACACTTCCAGAAGATGCTATGAGCACATTACTCTTCC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCC
833348 AAATTCAATGATTGATTT
66 AAATTCAATGATTGATTT
833366 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACAT
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACAT
833422 GGCATTTGTT
Statistics
Matches: 213, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
83 213 1.00
ACGTcount: A:0.40, C:0.23, G:0.12, T:0.25
Consensus pattern (83 bp):
TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCC
AAATTCAATGATTGATTT
Found at i:833337 original size:166 final size:171
Alignment explanation
Indices: 833028--833421 Score: 602
Period size: 166 Copynumber: 2.3 Consensus size: 171
833018 GGTTTTATAT
* * * *
833028 CAAACCAAATCAGAGAACTCAAAGAACACTTCCAGAAGATGCTATTAGCACATTCTTCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAA
*
833093 TTCAATAACTGGTTCTGTGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
66 TTC-A-AACTGGATCTGT-GTT-ATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
*
833158 ATACAATGAGCACATTCCTCTTCCAAATTCAATGATTGATTTTAC
127 ATACAATGAGCACATTACTCTTCCAAATTCAATGATTGATTTTAC
* *
833203 CAAACCAGATCAGATAACTCAAAGAACACTTACAGAAGATGCTATGAGAACATTCCTCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAA
* *
833268 TTC-AA-T-GAT-TGAT-TT-TACCAAACCAGATCAGATAACTCAAATAACACTTCCAGAAGATG
66 TTCAAACTGGATCTG-TGTTATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATA
*
833327 CTATGAGCACATTACTCTTCCAAATTCAATGATTGATTTTAC
130 CAATGAGCACATTACTCTTCCAAATTCAATGATTGATTTTAC
833369 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACAT
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACAT
833422 GGCATTTGTT
Statistics
Matches: 205, Mismatches: 13, Indels: 11
0.90 0.06 0.05
Matches are distributed among these distances:
166 133 0.65
168 2 0.01
169 2 0.01
170 3 0.01
171 1 0.00
172 2 0.01
175 62 0.30
ACGTcount: A:0.39, C:0.23, G:0.12, T:0.25
Consensus pattern (171 bp):
CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAA
TTCAAACTGGATCTGTGTTATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATAC
AATGAGCACATTACTCTTCCAAATTCAATGATTGATTTTAC
Found at i:834462 original size:16 final size:17
Alignment explanation
Indices: 834426--834463 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
834416 TGAATTTTCG
834426 AAAATAAATTAAATCTT
1 AAAATAAATTAAATCTT
*
834443 -AAATAAATTGAA-CTT
1 AAAATAAATTAAATCTT
834458 AAAATA
1 AAAATA
834464 GATAGAATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 3 0.16
16 16 0.84
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.32
Consensus pattern (17 bp):
AAAATAAATTAAATCTT
Found at i:834805 original size:17 final size:18
Alignment explanation
Indices: 834783--834817 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
834773 CTTGACCCCC
834783 CTTTTTTTTTCTT-TTTT
1 CTTTTTTTTTCTTCTTTT
834800 CTTTTTTTTTCTTCTTTT
1 CTTTTTTTTTCTTCTTTT
834818 TCTTCTTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (18 bp):
CTTTTTTTTTCTTCTTTT
Found at i:834822 original size:9 final size:9
Alignment explanation
Indices: 834785--834833 Score: 53
Period size: 9 Copynumber: 5.2 Consensus size: 9
834775 TGACCCCCCT
*
834785 TTTTTTTTC
1 TTTTTCTTC
*
834794 TTTTTTCTTTT
1 -TTTTTC-TTC
834805 TTTTTCTTC
1 TTTTTCTTC
834814 TTTTTCTTC
1 TTTTTCTTC
*
834823 TTCTTCTTC
1 TTTTTCTTC
834832 TT
1 TT
834834 CTCTTCAAGC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
9 21 0.62
10 11 0.32
11 2 0.06
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTTCTTC
Found at i:842150 original size:15 final size:15
Alignment explanation
Indices: 842127--842158 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
842117 TGAAATGAAT
842127 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
842142 AATGCATGTATGCAA
1 AATGAATGTATGCAA
842157 AA
1 AA
842159 AGGTATTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:844929 original size:9 final size:9
Alignment explanation
Indices: 844915--844939 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
844905 TAAACATGCT
844915 TTTAAATAA
1 TTTAAATAA
844924 TTTAAATAA
1 TTTAAATAA
844933 TTTAAAT
1 TTTAAAT
844940 TCACATGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (9 bp):
TTTAAATAA
Found at i:846505 original size:21 final size:19
Alignment explanation
Indices: 846467--846510 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
846457 AGAATAAAAT
*
846467 AAATTAAAACATATTATTC
1 AAATTAAAACATATTATTA
*
846486 AAATTAAAATATTAATTATTA
1 AAATTAAAACA-T-ATTATTA
846507 AAAT
1 AAAT
846511 CATAGGACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 10 0.48
20 1 0.05
21 10 0.48
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (19 bp):
AAATTAAAACATATTATTA
Found at i:847540 original size:3 final size:3
Alignment explanation
Indices: 847515--847594 Score: 133
Period size: 3 Copynumber: 26.0 Consensus size: 3
847505 TTAGGTTTTG
*
847515 TAA TAT TAA TAAA TAA TATA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
847562 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
847595 ATTTTAAAAT
Statistics
Matches: 73, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
3 67 0.92
4 6 0.08
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:847676 original size:29 final size:29
Alignment explanation
Indices: 847638--847701 Score: 119
Period size: 29 Copynumber: 2.2 Consensus size: 29
847628 GATGTCTACA
847638 ACATCATTACTTAAATGATGTAAGCAATG
1 ACATCATTACTTAAATGATGTAAGCAATG
*
847667 ACATCTTTACTTAAATGATGTAAGCAATG
1 ACATCATTACTTAAATGATGTAAGCAATG
847696 ACATCA
1 ACATCA
847702 ATTTAGTTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (29 bp):
ACATCATTACTTAAATGATGTAAGCAATG
Found at i:852431 original size:29 final size:29
Alignment explanation
Indices: 852388--852470 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
852378 CTCACCTAAC
852388 TAAATTGATGTAAGCAATGACATCATTACT
1 TAAA-TGATGTAAGCAATGACATCATTACT
* *
852418 TAAATGATGTAAGCAATGGCATCTTTACT
1 TAAATGATGTAAGCAATGACATCATTACT
852447 TAAATGATGTAAGCAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
852471 ATTTAGTTTG
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 45 0.92
30 4 0.08
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTACT
Found at i:857999 original size:29 final size:29
Alignment explanation
Indices: 857903--858072 Score: 143
Period size: 29 Copynumber: 5.9 Consensus size: 29
857893 AAATATTATC
* *
857903 AGAATAAAATATAAATATTTAAGTTAAGATA
1 AGAATAAAATAT--ATTTTTAAGTTAAAATA
* * * **
857934 AAAATAAATTATATTTTTAATTTATTATA
1 AGAATAAAATATATTTTTAAGTTAAAATA
* * *
857963 AGATTAAAATATATTTTTAAATTAAAATG
1 AGAATAAAATATATTTTTAAGTTAAAATA
*
857992 AGAATAAAATATA-TTTTAGGTTACAAA-A
1 AGAATAAAATATATTTTTAAGTTA-AAATA
* *
858020 AGAATAAAATATATTTAATAAGTTAAGATA
1 AGAATAAAATATATTT-TTAAGTTAAAATA
858050 A-AA-AAAATAT-TTTTTAAAGTTAA
1 AGAATAAAATATATTTTT-AAGTTAA
858073 GTTGTAAAAT
Statistics
Matches: 113, Mismatches: 21, Indels: 14
0.76 0.14 0.09
Matches are distributed among these distances:
26 1 0.01
27 10 0.09
28 28 0.25
29 56 0.50
30 8 0.07
31 10 0.09
ACGTcount: A:0.54, C:0.01, G:0.07, T:0.38
Consensus pattern (29 bp):
AGAATAAAATATATTTTTAAGTTAAAATA
Found at i:859343 original size:17 final size:17
Alignment explanation
Indices: 859321--859364 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
859311 TACTGCTATA
859321 TGTTCTACTATCTGTTC
1 TGTTCTACTATCTGTTC
*
859338 TGTTCTACTATTTGTTC
1 TGTTCTACTATCTGTTC
*
859355 TTTTCTACTA
1 TGTTCTACTA
859365 GCCCACTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.14, C:0.20, G:0.09, T:0.57
Consensus pattern (17 bp):
TGTTCTACTATCTGTTC
Found at i:861970 original size:26 final size:26
Alignment explanation
Indices: 861935--862112 Score: 158
Period size: 26 Copynumber: 7.5 Consensus size: 26
861925 ATGCCTTAAT
*
861935 GCATCCTTTCATACATTTTATTTATG
1 GCATCCTTTCATGCATTTTATTTATG
* *
861961 GCATCTTTTCATGC--CTTA---AT-
1 GCATCCTTTCATGCATTTTATTTATG
861981 GCATCCTTTCATGCATTTTATTTATG
1 GCATCCTTTCATGCATTTTATTTATG
** *
862007 GCAT-CTTT--T-CA-TTCCTTAAT-
1 GCATCCTTTCATGCATTTTATTTATG
*
862027 GCATCTTTTCATGCATTTTATTTATG
1 GCATCCTTTCATGCATTTTATTTATG
*
862053 GCATCCTTTCATGC--CTTA---AT-
1 GCATCCTTTCATGCATTTTATTTATG
862073 GCATCCTTTCATGCATTTTATTTATG
1 GCATCCTTTCATGCATTTTATTTATG
862099 GCATCCTTTCATGC
1 GCATCCTTTCATGC
862113 CTTAGTACAT
Statistics
Matches: 119, Mismatches: 15, Indels: 36
0.70 0.09 0.21
Matches are distributed among these distances:
20 31 0.26
21 13 0.11
22 8 0.07
23 2 0.02
24 8 0.07
25 14 0.12
26 43 0.36
ACGTcount: A:0.20, C:0.22, G:0.10, T:0.48
Consensus pattern (26 bp):
GCATCCTTTCATGCATTTTATTTATG
Found at i:861975 original size:46 final size:46
Alignment explanation
Indices: 861902--862132 Score: 374
Period size: 46 Copynumber: 5.0 Consensus size: 46
861892 TGGTAAATTT
* *
861902 CATTTTATTTATGACATCCTTTT-ATGCCTTAATGCATCCTTTCATA
1 CATTTTATTTATGGCAT-CTTTTCATGCCTTAATGCATCCTTTCATG
861948 CATTTTATTTATGGCATCTTTTCATGCCTTAATGCATCCTTTCATG
1 CATTTTATTTATGGCATCTTTTCATGCCTTAATGCATCCTTTCATG
* *
861994 CATTTTATTTATGGCATCTTTTCATTCCTTAATGCATCTTTTCATG
1 CATTTTATTTATGGCATCTTTTCATGCCTTAATGCATCCTTTCATG
*
862040 CATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
1 CATTTTATTTATGGCATCTTTTCATGCCTTAATGCATCCTTTCATG
* * *
862086 CATTTTATTTATGGCATCCTTTCATGCCTTAGTACATCCTTTCATG
1 CATTTTATTTATGGCATCTTTTCATGCCTTAATGCATCCTTTCATG
862132 C
1 C
862133 CAATAATACA
Statistics
Matches: 175, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
45 5 0.03
46 170 0.97
ACGTcount: A:0.20, C:0.23, G:0.10, T:0.48
Consensus pattern (46 bp):
CATTTTATTTATGGCATCTTTTCATGCCTTAATGCATCCTTTCATG
Found at i:862173 original size:34 final size:34
Alignment explanation
Indices: 862124--862188 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
862114 TTAGTACATC
862124 CTTTCATGCCAATAATACACCCATATGCATTATT
1 CTTTCATGCCAATAATACACCCATATGCATTATT
* * *
862158 CTTTTATGCCGATAATGCACCCATATGCATT
1 CTTTCATGCCAATAATACACCCATATGCATT
862189 TCAGCTATGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.29, C:0.26, G:0.09, T:0.35
Consensus pattern (34 bp):
CTTTCATGCCAATAATACACCCATATGCATTATT
Found at i:862250 original size:78 final size:79
Alignment explanation
Indices: 862120--862375 Score: 415
Period size: 79 Copynumber: 3.3 Consensus size: 79
862110 TGCCTTAGTA
*
862120 CATCCTTTCATGCCAATAATACACCCATATGCATTATTCTTTTATGCCGATAATGCACCCATATG
1 CATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCCATATG
862185 CATTTCAGCTATGG
66 CATTTCAGCTATGG
* **
862199 CATCCTTTCATGCCAATAATGC-CCCATATGCATTATTTTTTTATGTTGATAATGCACCCATATG
1 CATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCCATATG
*
862263 CATTTCAACTATGG
66 CATTTCAGCTATGG
* * *
862277 CATACTTTTATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCCCCCATATG
1 CATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCCATATG
*
862342 CATTTCAGCTATGT
66 CATTTCAGCTATGG
*
862356 CGTCCTTTCATGCCAATAAT
1 CATCCTTTCATGCCAATAAT
862376 TATGAATTCG
Statistics
Matches: 160, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
78 72 0.45
79 88 0.55
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.36
Consensus pattern (79 bp):
CATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCCATATG
CATTTCAGCTATGG
Found at i:862319 original size:34 final size:34
Alignment explanation
Indices: 862281--862345 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
862271 CTATGGCATA
862281 CTTTTATGCCAATAATGCACCCATATGCATTATT
1 CTTTTATGCCAATAATGCACCCATATGCATTATT
* *
862315 CTTTTATGCCGATAATGCCCCCATATGCATT
1 CTTTTATGCCAATAATGCACCCATATGCATT
862346 TCAGCTATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.37
Consensus pattern (34 bp):
CTTTTATGCCAATAATGCACCCATATGCATTATT
Found at i:862473 original size:2 final size:2
Alignment explanation
Indices: 862466--862604 Score: 233
Period size: 2 Copynumber: 69.5 Consensus size: 2
862456 ATATTATAAA
862466 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
* * * *
862508 AC AC AC AT GC GC AC GC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
*
862550 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AT
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
862592 AC AC AC AC AC AC A
1 AC AC AC AC AC AC A
862605 TATATATATA
Statistics
Matches: 129, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 129 1.00
ACGTcount: A:0.48, C:0.48, G:0.02, T:0.01
Consensus pattern (2 bp):
AC
Found at i:865848 original size:26 final size:26
Alignment explanation
Indices: 865813--865990 Score: 158
Period size: 26 Copynumber: 7.5 Consensus size: 26
865803 ATGCCTTAAT
865813 GCATCATTTCATGCATTTTATTTATG
1 GCATCATTTCATGCATTTTATTTATG
* *
865839 GCATCTTTTCATG--TCTTA---AT-
1 GCATCATTTCATGCATTTTATTTATG
*
865859 GCATCTTTTCATGCATTTTATTTATG
1 GCATCATTTCATGCATTTTATTTATG
* *
865885 GCATCCTTTCATGC--CTTA---AT-
1 GCATCATTTCATGCATTTTATTTATG
865905 GCATCATTTCATGCATTTTATTTATG
1 GCATCATTTCATGCATTTTATTTATG
* *
865931 GCATCCTTTCATGC--CTTA---AT-
1 GCATCATTTCATGCATTTTATTTATG
*
865951 GCATCCTTTCATGCATTTTATTTATG
1 GCATCATTTCATGCATTTTATTTATG
865977 GCATCATTTCATGC
1 GCATCATTTCATGC
865991 CTTAATACAT
Statistics
Matches: 123, Mismatches: 11, Indels: 36
0.72 0.06 0.21
Matches are distributed among these distances:
20 40 0.33
21 6 0.05
22 10 0.08
24 10 0.08
25 6 0.05
26 51 0.41
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.47
Consensus pattern (26 bp):
GCATCATTTCATGCATTTTATTTATG
Found at i:865857 original size:46 final size:46
Alignment explanation
Indices: 865780--866010 Score: 381
Period size: 46 Copynumber: 5.0 Consensus size: 46
865770 CGTTAAATTT
* *
865780 CATTTTATTTATGACATCCTTTTATGCCTTAATGCATCATTTCATG
1 CATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCATTTCATG
* * *
865826 CATTTTATTTATGGCATCTTTTCATGTCTTAATGCATCTTTTCATG
1 CATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCATTTCATG
865872 CATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCATTTCATG
1 CATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCATTTCATG
*
865918 CATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
1 CATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCATTTCATG
* * *
865964 CATTTTATTTATGGCATCATTTCATGCCTTAATACATCCTTTCATG
1 CATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCATTTCATG
866010 C
1 C
866011 CAATAATGCA
Statistics
Matches: 174, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 174 1.00
ACGTcount: A:0.22, C:0.21, G:0.10, T:0.47
Consensus pattern (46 bp):
CATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCATTTCATG
Found at i:866051 original size:34 final size:34
Alignment explanation
Indices: 866002--866298 Score: 225
Period size: 34 Copynumber: 7.8 Consensus size: 34
865992 TTAATACATC
*
866002 CTTTCATGCCAATAATGCACCCATATGCATTATT
1 CTTTTATGCCAATAATGCACCCATATGCATTATT
*
866036 CTTTTATGCCGATAATGCACCCATATGCATTTAAGCTAT
1 CTTTTATGCCAATAATGCACCCATATGCA-TT-A--T-T
866075 GGCATCCTTTCATGCCAATAATGCACCCATATGCATTATT
1 --C-T--TTT-ATGCCAATAATGCACCCATATGCATTATT
*
866115 CTTTTATGCCGATAATGCACCCATATGCATTTCAGCTAT
1 CTTTTATGCCAATAATGCACCCATATGCA-TT-A--T-T
*
866154 GGCATCCTTTCATGCCAATAATGCACCCATATTCATTATT
1 --C-T--TTT-ATGCCAATAATGCACCCATATGCATTATT
* * *
866194 CTTTTATGTCGATAATGAACCCATATGCATTTCAACTGT
1 CTTTTATGCCAATAATGCACCCATATGCA-TT--A-T-T
866233 GGCATCATTTCATGCCAATAATGCACCCATATGCATTATT
1 --C-T--TTT-ATGCCAATAATGCACCCATATGCATTATT
*
866273 CTTTTATGCCGATAATGCACCCATAT
1 CTTTTATGCCAATAATGCACCCATAT
866299 ATATTTCAGC
Statistics
Matches: 216, Mismatches: 14, Indels: 66
0.73 0.05 0.22
Matches are distributed among these distances:
34 90 0.42
35 15 0.07
36 2 0.01
37 4 0.02
38 6 0.03
39 3 0.01
40 3 0.01
41 6 0.03
42 4 0.02
43 2 0.01
44 15 0.07
45 66 0.31
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (34 bp):
CTTTTATGCCAATAATGCACCCATATGCATTATT
Found at i:866093 original size:79 final size:79
Alignment explanation
Indices: 865998--866333 Score: 575
Period size: 79 Copynumber: 4.3 Consensus size: 79
865988 TGCCTTAATA
865998 CATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCCATATG
1 CATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCCATATG
866063 CATTTAAGCTATGG
66 CATTTAAGCTATGG
866077 CATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCCATATG
1 CATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCCATATG
*
866142 CATTTCAGCTATGG
66 CATTTAAGCTATGG
* * *
866156 CATCCTTTCATGCCAATAATGCACCCATATTCATTATTCTTTTATGTCGATAATGAACCCATATG
1 CATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCCATATG
*
866221 CATTTCAA-CTGTGG
66 CATTT-AAGCTATGG
* *
866235 CATCATTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCCATATA
1 CATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCCATATG
* *
866300 TATTTCAGCTATGG
66 CATTTAAGCTATGG
866314 CATCCTTTCATGCCAATAAT
1 CATCCTTTCATGCCAATAAT
866334 TATGAATTCG
Statistics
Matches: 240, Mismatches: 15, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
78 1 0.00
79 238 0.99
80 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (79 bp):
CATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCCATATG
CATTTAAGCTATGG
Found at i:866096 original size:45 final size:42
Alignment explanation
Indices: 866036--866333 Score: 221
Period size: 45 Copynumber: 7.4 Consensus size: 42
866026 ATGCATTATT
* *
866036 CTTTTATGCCGATAATGCACCCATATGCATTTAAGCTATGGCATC
1 CTTTCATGCCAATAATGCACCCATATGCATTT-A-CT-TGGCATC
866081 CTTTCATGCCAATAATGCACCCATATGCA-TTA-TT--C-T-
1 CTTTCATGCCAATAATGCACCCATATGCATTTACTTGGCATC
*
866117 -TTT-ATGCCGATAATGCACCCATATGCATTTCAGCTATGGCATC
1 CTTTCATGCCAATAATGCACCCATATGCATTT-A-CT-TGGCATC
*
866160 CTTTCATGCCAATAATGCACCCATATTCA-TTA-TT--C-T-
1 CTTTCATGCCAATAATGCACCCATATGCATTTACTTGGCATC
* * *
866196 -TTT-ATGTCGATAATGAACCCATATGCATTTCAACTGTGGCATC
1 CTTTCATGCCAATAATGCACCCATATGCATTT--ACT-TGGCATC
*
866239 ATTTCATGCCAATAATGCACCCATATGCA-TTA-TT--C-T-
1 CTTTCATGCCAATAATGCACCCATATGCATTTACTTGGCATC
* **
866275 -TTT-ATGCCGATAATGCACCCATATATATTTCAGCTATGGCATC
1 CTTTCATGCCAATAATGCACCCATATGCATTT-A-CT-TGGCATC
866318 CTTTCATGCCAATAAT
1 CTTTCATGCCAATAAT
866334 TATGAATTCG
Statistics
Matches: 204, Mismatches: 16, Indels: 66
0.71 0.06 0.23
Matches are distributed among these distances:
34 64 0.31
35 15 0.07
36 2 0.01
37 4 0.02
38 6 0.03
39 3 0.01
40 3 0.01
41 6 0.03
42 4 0.02
43 2 0.01
44 15 0.07
45 80 0.39
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (42 bp):
CTTTCATGCCAATAATGCACCCATATGCATTTACTTGGCATC
Found at i:868362 original size:22 final size:21
Alignment explanation
Indices: 868336--868394 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 21
868326 TTTGAATTTT
*
868336 TTTAAAATAAAAATATTTTATA
1 TTTAAAATAAAAATATATTA-A
868358 TTTAAAATATAAAA-ATATTAA
1 TTTAAAATA-AAAATATATTAA
*
868379 ATTAAATATAAAAATA
1 TTTAAA-ATAAAAATA
868395 CCATTATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 10 0.31
22 18 0.56
23 4 0.12
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
TTTAAAATAAAAATATATTAA
Found at i:868441 original size:16 final size:16
Alignment explanation
Indices: 868421--868464 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
868411 TTAATTATTA
868421 AATAAATATATTAAAAT
1 AATAAATAT-TTAAAAT
*
868438 -ATAAATATTTAAATT
1 AATAAATATTTAAAAT
868453 AATAAATATTTA
1 AATAAATATTTA
868465 CTATAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 6 0.24
16 19 0.76
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AATAAATATTTAAAAT
Found at i:868679 original size:16 final size:16
Alignment explanation
Indices: 868641--868683 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
868631 AATTCAATCA
* *
868641 AATTCAT-ATTATTTT
1 AATTCATAAATATATT
868656 AA-TCATAAATATATT
1 AATTCATAAATATATT
868671 AATTCATAAATAT
1 AATTCATAAATAT
868684 CTTTTTTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 4 0.17
15 10 0.42
16 10 0.42
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (16 bp):
AATTCATAAATATATT
Found at i:869519 original size:34 final size:33
Alignment explanation
Indices: 869475--869545 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 33
869465 AAAATTTTTA
* *
869475 AAAATGGAAAAAGAATTAAAATTAGGGTTAAAAT
1 AAAATGG-AAAAGAAATAAAACTAGGGTTAAAAT
* * *
869509 AAAATTGAAAAGAAATGATACTAGGGTTAAAAT
1 AAAATGGAAAAGAAATAAAACTAGGGTTAAAAT
869542 AAAA
1 AAAA
869546 ATATTAAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 26 0.81
34 6 0.19
ACGTcount: A:0.59, C:0.01, G:0.17, T:0.23
Consensus pattern (33 bp):
AAAATGGAAAAGAAATAAAACTAGGGTTAAAAT
Found at i:870969 original size:38 final size:38
Alignment explanation
Indices: 870912--871056 Score: 159
Period size: 40 Copynumber: 3.7 Consensus size: 38
870902 TCAAAGATTA
* *
870912 TATATATTATATACATTTTCAAAAACTGTTTTTTAAAAAC
1 TATATATTATAT--GTTTTCAAAAACTATTTTTTAAAAAC
* * *
870952 TATATATTATATGTTTTCAAAATAATATGTTTTCAAAAAT
1 TATATATTATATGTTTTCAAAA-ACTAT-TTTTTAAAAAC
*
870992 TATAT-TATATATGTTTTCAAAAA-TCATTTTTTAAGAAC
1 TATATAT-TATATGTTTTCAAAAACT-ATTTTTTAAAAAC
*
871030 TATATATTATATGTTTTAAAAAACTAT
1 TATATATTATATGTTTTCAAAAACTAT
871057 ATATTATATG
Statistics
Matches: 90, Mismatches: 9, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
38 40 0.44
39 9 0.10
40 41 0.46
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (38 bp):
TATATATTATATGTTTTCAAAAACTATTTTTTAAAAAC
Found at i:870973 original size:24 final size:23
Alignment explanation
Indices: 870941--871015 Score: 58
Period size: 24 Copynumber: 3.5 Consensus size: 23
870931 CAAAAACTGT
*
870941 TTTTTAAAAACTATATATTATATG
1 TTTTCAAAAA-TATATATTATATG
870965 TTTTC---AA-A-ATA--ATATG
1 TTTTCAAAAATATATATTATATG
870981 TTTTCAAAAAT-TATATTATATATG
1 TTTTCAAAAATATATA-T-TATATG
871005 TTTTCAAAAAT
1 TTTTCAAAAAT
871016 CATTTTTTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 18
0.68 0.02 0.30
Matches are distributed among these distances:
16 10 0.24
18 3 0.07
19 3 0.07
20 3 0.07
21 2 0.05
24 20 0.49
ACGTcount: A:0.43, C:0.05, G:0.04, T:0.48
Consensus pattern (23 bp):
TTTTCAAAAATATATATTATATG
Found at i:870996 original size:17 final size:16
Alignment explanation
Indices: 870957--870996 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
870947 AAAACTATAT
870957 ATTATATGTTTTCAAA
1 ATTATATGTTTTCAAA
*
870973 ATAATATGTTTTCAAAA
1 ATTATATGTTTTC-AAA
870990 ATTATAT
1 ATTATAT
870997 TATATATGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (16 bp):
ATTATATGTTTTCAAA
Found at i:871010 original size:78 final size:81
Alignment explanation
Indices: 870891--871051 Score: 222
Period size: 78 Copynumber: 2.0 Consensus size: 81
870881 CAAAAACAAT
*
870891 ATAATATGTTCTCAAAGATTATATATATTATATACATTTTCAAAAA-CTGTTTTTTAAAAACTAT
1 ATAATATGTTCTCAAAGA-TATATATATTATATACATTTTCAAAAATC-ATTTTTTAAAAACTAT
*
870955 ATATTATATGTTTTCAAA
64 ATATTATATGTTTTAAAA
* ** *
870973 ATAATATGTTTTCAAA-A-AT-TATATTATATATGTTTTCAAAAATCATTTTTTAAGAACTATAT
1 ATAATATGTTCTCAAAGATATATATATTATATACATTTTCAAAAATCATTTTTTAAAAACTATAT
871035 ATTATATGTTTTAAAA
66 ATTATATGTTTTAAAA
871051 A
1 A
871052 ACTATATATT
Statistics
Matches: 72, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
78 53 0.74
79 3 0.04
81 1 0.01
82 15 0.21
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.46
Consensus pattern (81 bp):
ATAATATGTTCTCAAAGATATATATATTATATACATTTTCAAAAATCATTTTTTAAAAACTATAT
ATTATATGTTTTAAAA
Found at i:871076 original size:26 final size:24
Alignment explanation
Indices: 871027--871082 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
871017 ATTTTTTAAG
871027 AACTATATATTATATGTTTTAAAA
1 AACTATATATTATATGTTTTAAAA
*
871051 AACTATATATTATATGTTTTCAAA
1 AACTATATATTATATGTTTTAAAA
871075 AACTATAT
1 AACTATAT
871083 CTTCAAAAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.45
Consensus pattern (24 bp):
AACTATATATTATATGTTTTAAAA
Found at i:871099 original size:17 final size:15
Alignment explanation
Indices: 871069--871097 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
871059 ATTATATGTT
871069 TTCAAAAACTATATC
1 TTCAAAAACTATATC
871084 TTCAAAAACTATAT
1 TTCAAAAACTATAT
871098 ATATTATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.34
Consensus pattern (15 bp):
TTCAAAAACTATATC
Found at i:871122 original size:62 final size:61
Alignment explanation
Indices: 870976--871125 Score: 151
Period size: 62 Copynumber: 2.4 Consensus size: 61
870966 TTTCAAAATA
* * * * *
870976 ATATGTTTTCAAAAATTATATTATATATGTTTTCAAAAATCATTTTTTAAGAACTATATATT
1 ATATATTTTAAAAAATTATA-TATATATGTTTTCAAAAATCATTCTTCAAAAACTATATATT
* *
871038 ATATGTTTTAAAAAACTATATATTATATGTTTTCAAAAA-CTATATCTTCAAAAACTATATATAT
1 ATATATTTTAAAAAATTATATA-TATATGTTTTCAAAAATC-AT-TCTTCAAAAAC--TATATAT
871102 T
61 T
**
871103 ATATATTTT-TGAAATTATATATA
1 ATATATTTTAAAAAATTATATATA
871126 CTAAATAAAG
Statistics
Matches: 74, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
61 3 0.04
62 36 0.49
63 10 0.14
64 9 0.12
65 16 0.22
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.47
Consensus pattern (61 bp):
ATATATTTTAAAAAATTATATATATATGTTTTCAAAAATCATTCTTCAAAAACTATATATT
Found at i:872072 original size:22 final size:22
Alignment explanation
Indices: 872045--872091 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
872035 TATTTTTTGG
872045 TTCTTGATTTTAGATTCTCTGA
1 TTCTTGATTTTAGATTCTCTGA
*
872067 TTCTTGATTTTGGATTCTCTGA
1 TTCTTGATTTTAGATTCTCTGA
872089 TTC
1 TTC
872092 CTCAATGGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.55
Consensus pattern (22 bp):
TTCTTGATTTTAGATTCTCTGA
Found at i:872124 original size:24 final size:24
Alignment explanation
Indices: 872084--872129 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
872074 TTTTGGATTC
872084 TCTGATTCCTCAATGGG-TTTTGA
1 TCTGATTCCTCAATGGGATTTTGA
**
872107 TCTGATATCCTCTTTGGGATTTT
1 TCTGAT-TCCTCAATGGGATTTT
872130 TTTTCTTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 6 0.32
24 9 0.47
25 4 0.21
ACGTcount: A:0.15, C:0.17, G:0.20, T:0.48
Consensus pattern (24 bp):
TCTGATTCCTCAATGGGATTTTGA
Found at i:879583 original size:24 final size:24
Alignment explanation
Indices: 879539--879604 Score: 78
Period size: 24 Copynumber: 2.8 Consensus size: 24
879529 CTGAGGATTG
* * *
879539 TGCTATTGCAACATATTAAGCTTA
1 TGCTTTTGCAACAGATGAAGCTTA
* *
879563 TGTTTTTGCAACAGATGAAGCTTG
1 TGCTTTTGCAACAGATGAAGCTTA
*
879587 TGCTTTTGTAACAGATGA
1 TGCTTTTGCAACAGATGA
879605 GTCCCCTTGA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.38
Consensus pattern (24 bp):
TGCTTTTGCAACAGATGAAGCTTA
Found at i:883217 original size:5 final size:5
Alignment explanation
Indices: 883207--883231 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
883197 AAATTAGGGT
883207 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
883232 ATGAATTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:884587 original size:28 final size:28
Alignment explanation
Indices: 884555--884608 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
884545 ATAATTTGTG
*
884555 TATATTAAAAAAACTATATAATATATAT
1 TATATTAAAAAAACAATATAATATATAT
**
884583 TATATTTCAAAAACAATATAATATAT
1 TATATTAAAAAAACAATATAATATAT
884609 TCTCAAAGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (28 bp):
TATATTAAAAAAACAATATAATATATAT
Found at i:884627 original size:21 final size:20
Alignment explanation
Indices: 884576--884627 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
884566 AACTATATAA
884576 TATATATTATATTTCAAAAAC
1 TATATA-TATATTTCAAAAAC
* * *
884597 AATATAATATATTCTCAAAGAT
1 TATAT-ATATATT-TCAAAAAC
884619 TATATATAT
1 TATATATAT
884628 TATATACGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 14 0.56
22 11 0.44
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.42
Consensus pattern (20 bp):
TATATATATATTTCAAAAAC
Found at i:884683 original size:39 final size:38
Alignment explanation
Indices: 884621--884820 Score: 199
Period size: 39 Copynumber: 5.1 Consensus size: 38
884611 TCAAAGATTA
*
884621 TATATATTATATACGTTTCCAAAAATCATTTTTTAAAAAAC
1 TATATATTATAT--GTTTTCAAAAATCATTTTTT-AAAAAC
* *
884662 TATATATTATATGTTTTCAAAATAAT-ATGTTTTCAAAACC
1 TATATATTATATGTTTTC-AAA-AATCAT-TTTTTAAAAAC
* * *
884702 CATAT-TATATATGTTTTCAAAAACCATTTTTTAAGAAC
1 TATATAT-TATATGTTTTCAAAAATCATTTTTTAAAAAC
* * *
884740 TATATATTATATGTTTGCAAGCAATCGTTTTTTAAAAAC
1 TATATATTATATGTTTTCAA-AAATCATTTTTTAAAAAC
*
884779 TATATATTATATGTTTTCAAAAAAT-ATGTTTTCAAAAAC
1 TATATATTATATGTTTTC-AAAAATCAT-TTTTTAAAAAC
884818 TAT
1 TAT
884821 TTCTTCAAAA
Statistics
Matches: 132, Mismatches: 18, Indels: 20
0.78 0.11 0.12
Matches are distributed among these distances:
38 27 0.20
39 59 0.45
40 27 0.20
41 19 0.14
ACGTcount: A:0.41, C:0.10, G:0.06, T:0.43
Consensus pattern (38 bp):
TATATATTATATGTTTTCAAAAATCATTTTTTAAAAAC
Found at i:884832 original size:15 final size:15
Alignment explanation
Indices: 884788--884835 Score: 71
Period size: 15 Copynumber: 3.2 Consensus size: 15
884778 CTATATATTA
*
884788 TATGTTTTCAAAAAA
1 TATGTTTTCAAAAAC
884803 TATGTTTTCAAAAAC
1 TATGTTTTCAAAAAC
884818 TAT-TTCTTCAAAAAC
1 TATGTT-TTCAAAAAC
884833 TAT
1 TAT
884836 ATATTATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
14 2 0.06
15 29 0.94
ACGTcount: A:0.42, C:0.12, G:0.04, T:0.42
Consensus pattern (15 bp):
TATGTTTTCAAAAAC
Found at i:885283 original size:6 final size:6
Alignment explanation
Indices: 885272--885409 Score: 240
Period size: 6 Copynumber: 23.0 Consensus size: 6
885262 AAGTTAATTT
* * *
885272 CATTGC CATTGC CATTAC CATTAC CATTAC CATTAC CATTAC TATTAC
1 CATTAC CATTAC CATTAC CATTAC CATTAC CATTAC CATTAC CATTAC
*
885320 CATTAC CATTAC CATTAC CATTAC CATTAT CATTAC CATTAC CATTAC
1 CATTAC CATTAC CATTAC CATTAC CATTAC CATTAC CATTAC CATTAC
885368 CATTAC CATTAC CATTAC CATTAC CATTAC CATTAC CATTAC
1 CATTAC CATTAC CATTAC CATTAC CATTAC CATTAC CATTAC
885410 ATGATAAAGT
Statistics
Matches: 127, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 127 1.00
ACGTcount: A:0.32, C:0.32, G:0.01, T:0.35
Consensus pattern (6 bp):
CATTAC
Found at i:885707 original size:108 final size:108
Alignment explanation
Indices: 885518--885735 Score: 436
Period size: 108 Copynumber: 2.0 Consensus size: 108
885508 AGAAGACATC
885518 ATAATCACCAAAGCAATGGGGACCAAACCAAAATCATGTTCAGCTACGCCTACCACACGTTGGGG
1 ATAATCACCAAAGCAATGGGGACCAAACCAAAATCATGTTCAGCTACGCCTACCACACGTTGGGG
885583 TTTTAAAACACTGATTAAAATAAACGGTTACTTCAATTATAAA
66 TTTTAAAACACTGATTAAAATAAACGGTTACTTCAATTATAAA
885626 ATAATCACCAAAGCAATGGGGACCAAACCAAAATCATGTTCAGCTACGCCTACCACACGTTGGGG
1 ATAATCACCAAAGCAATGGGGACCAAACCAAAATCATGTTCAGCTACGCCTACCACACGTTGGGG
885691 TTTTAAAACACTGATTAAAATAAACGGTTACTTCAATTATAAA
66 TTTTAAAACACTGATTAAAATAAACGGTTACTTCAATTATAAA
885734 AT
1 AT
885736 GAAGTATTGC
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
108 110 1.00
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.24
Consensus pattern (108 bp):
ATAATCACCAAAGCAATGGGGACCAAACCAAAATCATGTTCAGCTACGCCTACCACACGTTGGGG
TTTTAAAACACTGATTAAAATAAACGGTTACTTCAATTATAAA
Found at i:887405 original size:20 final size:20
Alignment explanation
Indices: 887382--887426 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
887372 GCGAATTTGT
*
887382 AATTCGCAACACATAAGTTA
1 AATTCGCAACACATAAGTCA
887402 AATTCGCAACACATAAGTCA
1 AATTCGCAACACATAAGTCA
887422 AATTC
1 AATTC
887427 CCAAAGCGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.44, C:0.22, G:0.09, T:0.24
Consensus pattern (20 bp):
AATTCGCAACACATAAGTCA
Found at i:887642 original size:22 final size:22
Alignment explanation
Indices: 887578--887645 Score: 100
Period size: 22 Copynumber: 3.1 Consensus size: 22
887568 TCACTCTATA
* **
887578 CGGCGATATCCGTCCCCATCCC
1 CGGCGAAATCCGTCCCCATATC
887600 CGGCGAAATCCGTCCCCATATC
1 CGGCGAAATCCGTCCCCATATC
*
887622 CGGCGAAATCCGTCCTCATATC
1 CGGCGAAATCCGTCCCCATATC
887644 CG
1 CG
887646 ACGACTCCCC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.19, C:0.43, G:0.19, T:0.19
Consensus pattern (22 bp):
CGGCGAAATCCGTCCCCATATC
Found at i:888113 original size:20 final size:19
Alignment explanation
Indices: 888064--888124 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 19
888054 AAAATGAAAA
*
888064 TTGCAATGCGATTTTAGTT
1 TTGCATTGCGATTTTAGTT
888083 TTGCATTGCGATTTTCA-TT
1 TTGCATTGCGATTTT-AGTT
* *
888102 TTCGCGTTGCGAATTTAAGTT
1 TT-GCATTGCG-ATTTTAGTT
888123 TT
1 TT
888125 AGAAACTACT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
19 18 0.51
20 9 0.26
21 8 0.23
ACGTcount: A:0.18, C:0.13, G:0.20, T:0.49
Consensus pattern (19 bp):
TTGCATTGCGATTTTAGTT
Found at i:889803 original size:21 final size:21
Alignment explanation
Indices: 889779--889824 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
889769 GGGGAGTTAT
*
889779 GTGATGAGGTCAGTACTTTGC
1 GTGATGAGGTCAGTACTTTAC
*
889800 GTGATGAGGTCGGTACTTTAC
1 GTGATGAGGTCAGTACTTTAC
889821 GTGA
1 GTGA
889825 CGATAATGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.20, C:0.13, G:0.35, T:0.33
Consensus pattern (21 bp):
GTGATGAGGTCAGTACTTTAC
Found at i:890055 original size:4 final size:4
Alignment explanation
Indices: 890046--890088 Score: 50
Period size: 4 Copynumber: 10.8 Consensus size: 4
890036 TTTTTTCGGC
* * * *
890046 TTTA TTTA TTTA TTTA TTTA CTGA TTTA TGTA TTAA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
890089 TTAGCGGCTT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (4 bp):
TTTA
Found at i:890260 original size:21 final size:21
Alignment explanation
Indices: 890234--890350 Score: 121
Period size: 21 Copynumber: 5.6 Consensus size: 21
890224 TTCACCTGTC
*
890234 ATCGTTCAAGAGGCCCCTCCT
1 ATCGTTCAAGAGGTCCCTCCT
*
890255 ATCGTTCAAGAGG-CCCTTCT
1 ATCGTTCAAGAGGTCCCTCCT
*
890275 CATCGTTCAAGAGGTCCCTCCC
1 -ATCGTTCAAGAGGTCCCTCCT
* * **
890297 ACCATTCAAGAGGTTTCT-CT
1 ATCGTTCAAGAGGTCCCTCCT
*
890317 CATCGTTCAAGAGGTCCCTCCC
1 -ATCGTTCAAGAGGTCCCTCCT
*
890339 ACCGTTCAAGAG
1 ATCGTTCAAGAG
890351 CCCGATTCAC
Statistics
Matches: 78, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
20 7 0.09
21 65 0.83
22 6 0.08
ACGTcount: A:0.21, C:0.34, G:0.19, T:0.26
Consensus pattern (21 bp):
ATCGTTCAAGAGGTCCCTCCT
Found at i:890279 original size:42 final size:42
Alignment explanation
Indices: 890232--890350 Score: 168
Period size: 42 Copynumber: 2.8 Consensus size: 42
890222 GATTCACCTG
* * *
890232 TCATCGTTCAAGAGGCCCCTCCTATCGTTCAAGAGGCC-CTTC
1 TCATCGTTCAAGAGGTCCCTCCCACCGTTCAAGAGGCCTC-TC
* **
890274 TCATCGTTCAAGAGGTCCCTCCCACCATTCAAGAGGTTTCTC
1 TCATCGTTCAAGAGGTCCCTCCCACCGTTCAAGAGGCCTCTC
890316 TCATCGTTCAAGAGGTCCCTCCCACCGTTCAAGAG
1 TCATCGTTCAAGAGGTCCCTCCCACCGTTCAAGAG
890351 CCCGATTCAC
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
42 68 0.99
43 1 0.01
ACGTcount: A:0.21, C:0.34, G:0.18, T:0.26
Consensus pattern (42 bp):
TCATCGTTCAAGAGGTCCCTCCCACCGTTCAAGAGGCCTCTC
Found at i:891880 original size:20 final size:20
Alignment explanation
Indices: 891855--891893 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
891845 ATAGTCAAAT
*
891855 TCGCAACGTGAATTTGACTA
1 TCGCAACGCGAATTTGACTA
891875 TCGCAACGCGAATTTGACT
1 TCGCAACGCGAATTTGACT
891894 CAAGTTACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (20 bp):
TCGCAACGCGAATTTGACTA
Found at i:892096 original size:137 final size:137
Alignment explanation
Indices: 891921--892425 Score: 881
Period size: 137 Copynumber: 3.7 Consensus size: 137
891911 TTCAACTGAA
891921 AATGTTCAAACTCAAGTTACTAATGCATGTCTAACTGAAAATGTATGCATTCACACATAAAATAC
1 AATGTTCAAACTCAAGTTACTAATGCATGTCTAACTGAAAATGTATGCATTCACACATAAAATAC
* *
891986 ACATAATACAACGTTTGTATTTAAAAATCACACATAAAATACATGTTCAAACTCAACAGAACAAA
66 ACATAATACAACGTTTGCATTTAAAAATCACACATAAAATACATGTTCAAACTCAACAGAACAGA
*
892051 TCATAAC
131 TCATAGC
* *
892058 AATGTTCAAACTCAAGTTACTAATGCATGTCTAACTGAAAATGTATGCGTTTACACATAAAATAC
1 AATGTTCAAACTCAAGTTACTAATGCATGTCTAACTGAAAATGTATGCATTCACACATAAAATAC
*
892123 ACATAATACAACGTTTGCATTTAAAAATCACACATAAAATACATGTTCAAACTCAACATAACAGA
66 ACATAATACAACGTTTGCATTTAAAAATCACACATAAAATACATGTTCAAACTCAACAGAACAGA
892188 TCATAGC
131 TCATAGC
892195 AATGTTCAAACTCAAGTTACTAATGCATGTCTAACTGAAAATGTATGCATTCACACATAAAATAC
1 AATGTTCAAACTCAAGTTACTAATGCATGTCTAACTGAAAATGTATGCATTCACACATAAAATAC
892260 ACATAATACAACGTTTGCATTTAAAAAT-ATCACATAAAATACATGTTCAAACTCAACAGAACAG
66 ACATAATACAACGTTTGCATTTAAAAATCA-CACATAAAATACATGTTCAAACTCAACAGAACAG
892324 ATC--AGC
130 ATCATAGC
* * * *
892330 AATGTTCAAACTCAAGTTACTAATACATGTCTGACTGAAAATATATGCGTTCACACATAAAATAC
1 AATGTTCAAACTCAAGTTACTAATGCATGTCTAACTGAAAATGTATGCATTCACACATAAAATAC
*
892395 ACATAATACAACGTTTGTATTTAAAAATCAC
66 ACATAATACAACGTTTGCATTTAAAAATCAC
892426 CTAAGTTAAT
Statistics
Matches: 352, Mismatches: 14, Indels: 6
0.95 0.04 0.02
Matches are distributed among these distances:
135 92 0.26
136 2 0.01
137 258 0.73
ACGTcount: A:0.44, C:0.19, G:0.09, T:0.28
Consensus pattern (137 bp):
AATGTTCAAACTCAAGTTACTAATGCATGTCTAACTGAAAATGTATGCATTCACACATAAAATAC
ACATAATACAACGTTTGCATTTAAAAATCACACATAAAATACATGTTCAAACTCAACAGAACAGA
TCATAGC
Found at i:892484 original size:18 final size:18
Alignment explanation
Indices: 892461--892496 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
892451 AAGCCGGTTG
*
892461 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
892479 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
892497 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.25, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:894562 original size:12 final size:12
Alignment explanation
Indices: 894545--894570 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
894535 TTCTTCGGGG
894545 TCTTTTTCTTCT
1 TCTTTTTCTTCT
894557 TCTTTTTCTTCT
1 TCTTTTTCTTCT
894569 TC
1 TC
894571 AGGGTTATAT
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:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (12 bp):
TCTTTTTCTTCT
Found at i:894782 original size:24 final size:24
Alignment explanation
Indices: 894744--894797 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
894734 CTGAAACATC
894744 ATCAAAATCCAAGTATTGACCAAG
1 ATCAAAATCCAAGTATTGACCAAG
* *
894768 ATCAAAGTCCGAGTATTGACCAAG
1 ATCAAAATCCAAGTATTGACCAAG
894792 ATCAAA
1 ATCAAA
894798 TTTCGAATAC
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:0.44, C:0.20, G:0.15, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCAAGTATTGACCAAG
Found at i:894811 original size:24 final size:24
Alignment explanation
Indices: 894760--894811 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
894750 ATCCAAGTAT
* *
894760 TGACCAAGATCAAAGTCCGAGTAT
1 TGACCAAGATCAAAGTCCGAATAC
* *
894784 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTCCGAATAC
894808 TGAC
1 TGAC
894812 TAGTACTCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.23
Consensus pattern (24 bp):
TGACCAAGATCAAAGTCCGAATAC
Found at i:894943 original size:12 final size:12
Alignment explanation
Indices: 894922--894955 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
894912 GGTTGTGGGT
*
894922 TTTGAGATTGTG
1 TTTGATATTGTG
894934 TTTGATATTGTG
1 TTTGATATTGTG
*
894946 TTTGGTATTG
1 TTTGATATTG
894956 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:895568 original size:27 final size:26
Alignment explanation
Indices: 895538--895589 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
895528 TTTGGGAGAG
*
895538 AAATCAT-TGAAAAATTATATAGAAATA
1 AAATCATGT-AAAAAATAT-TAGAAATA
*
895565 AAATTATGTAAAAAATATTAGAAAT
1 AAATCATGTAAAAAATATTAGAAAT
895590 GGGGAAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 7 0.32
27 14 0.64
28 1 0.05
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.31
Consensus pattern (26 bp):
AAATCATGTAAAAAATATTAGAAATA
Found at i:895788 original size:40 final size:40
Alignment explanation
Indices: 895742--895909 Score: 110
Period size: 40 Copynumber: 4.2 Consensus size: 40
895732 AATAAAAGCT
* * *
895742 GTTGCGAAATTAAAATCCGTGTTGTGAATTCGAAAATCGA
1 GTTGCGAAAATAAAATCCGTGTTGCGAATTAGAAAATCGA
* * * **
895782 GTTGCGAAAACAAAATTCGTGTTGCGATTTAGAAAATCTT
1 GTTGCGAAAATAAAATCCGTGTTGCGAATTAGAAAATCGA
** * * ** * *
895822 GTTGCGAAAAGGAAA-CTTGTGTTGTGAAAAAGAAATTCGT
1 GTTGCGAAAATAAAATC-CGTGTTGCGAATTAGAAAATCGA
* *
895862 GTTGCG-AATTCAAAAAT-CGAGTTGCGAATTCA-AAAATCGA
1 GTTGCGAAAAT--AAAATCCGTGTTGCGAATT-AGAAAATCGA
895902 GTTGCGAA
1 GTTGCGAA
895910 TTTGGAAATC
Statistics
Matches: 94, Mismatches: 28, Indels: 11
0.71 0.21 0.08
Matches are distributed among these distances:
39 2 0.02
40 87 0.93
41 5 0.05
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (40 bp):
GTTGCGAAAATAAAATCCGTGTTGCGAATTAGAAAATCGA
Found at i:895807 original size:20 final size:20
Alignment explanation
Indices: 895722--895909 Score: 82
Period size: 20 Copynumber: 9.5 Consensus size: 20
895712 CAAAACATTT
* *
895722 GTGTTGCGAAAATAAAA-GC
1 GTGTTGCGAAAACAAAATTC
** *
895741 -TGTTGCGAAATTAAAATCC
1 GTGTTGCGAAAACAAAATTC
* **
895760 GTGTTGTGAATTCGAAAA-TC
1 GTGTTGCGAAAAC-AAAATTC
*
895780 GAGTTGCGAAAACAAAATTC
1 GTGTTGCGAAAACAAAATTC
** *
895800 GTGTTGCGATTTAGAAAA-TC
1 GTGTTGCGA-AAACAAAATTC
* * *
895820 TTGTTGCGAAAAGGAAACTT-
1 GTGTTGCGAAAA-CAAAATTC
*
895840 GTGTTGTGAAAA-AGAAATTC
1 GTGTTGCGAAAACA-AAATTC
** *
895860 GTGTTGCGAATTCAAAAATC
1 GTGTTGCGAAAACAAAATTC
* ** *
895880 GAGTTGCGAATTCAAAAATC
1 GTGTTGCGAAAACAAAATTC
*
895900 GAGTTGCGAA
1 GTGTTGCGAA
895910 TTTGGAAATC
Statistics
Matches: 133, Mismatches: 26, Indels: 19
0.75 0.15 0.11
Matches are distributed among these distances:
18 16 0.12
19 10 0.08
20 96 0.72
21 11 0.08
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (20 bp):
GTGTTGCGAAAACAAAATTC
Found at i:895825 original size:60 final size:60
Alignment explanation
Indices: 895741--895909 Score: 166
Period size: 60 Copynumber: 2.8 Consensus size: 60
895731 AAATAAAAGC
*
895741 TGTTGCGAAATT--AAAATCCGTGTTGTGAATTCGAAAATCGAGTTGCGAAAACA-AAATTCG
1 TGTTGCG-AATTCAAAAAT-CGTGTTGCGAATTCGAAAATCGAGTTGCGAAAA-AGAAATTCG
* * *** * * * *
895801 TGTTGCG-ATTTAGAAAATCTTGTTGCGAAAAGGAAACTTGTGTTGTGAAAAAGAAATTCG
1 TGTTGCGAATTCA-AAAATCGTGTTGCGAATTCGAAAATCGAGTTGCGAAAAAGAAATTCG
* *
895861 TGTTGCGAATTCAAAAATCGAGTTGCGAATTCAAAAATCGAGTTGCGAA
1 TGTTGCGAATTCAAAAATCGTGTTGCGAATTCGAAAATCGAGTTGCGAA
895910 TTTGGAAATC
Statistics
Matches: 84, Mismatches: 20, Indels: 10
0.74 0.18 0.09
Matches are distributed among these distances:
58 3 0.04
59 1 0.01
60 71 0.85
61 9 0.11
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (60 bp):
TGTTGCGAATTCAAAAATCGTGTTGCGAATTCGAAAATCGAGTTGCGAAAAAGAAATTCG
Found at i:895910 original size:20 final size:20
Alignment explanation
Indices: 895862--895931 Score: 104
Period size: 20 Copynumber: 3.5 Consensus size: 20
895852 AGAAATTCGT
895862 GTTGCGAATTCAAAAATCGA
1 GTTGCGAATTCAAAAATCGA
895882 GTTGCGAATTCAAAAATCGA
1 GTTGCGAATTCAAAAATCGA
*** *
895902 GTTGCGAATTTGGAAATCGC
1 GTTGCGAATTCAAAAATCGA
895922 GTTGCGAATT
1 GTTGCGAATT
895932 TGGAATCGCG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (20 bp):
GTTGCGAATTCAAAAATCGA
Found at i:895940 original size:19 final size:20
Alignment explanation
Indices: 895875--896032 Score: 98
Period size: 20 Copynumber: 8.0 Consensus size: 20
895865 GCGAATTCAA
* ***
895875 AAATCGAGTTGCGAATTCAA
1 AAATCGCGTTGCGAATTTGG
*
895895 AAATCGAGTTGCGAATTTGG
1 AAATCGCGTTGCGAATTTGG
895915 AAATCGCGTTGCGAATTTGG
1 AAATCGCGTTGCGAATTTGG
**
895935 -AATCGCGTTGCGAGA--AAG
1 AAATCGCGTTGCGA-ATTTGG
895953 AAATTCGCGTTGCG-A-TTGCAG
1 AAA-TCGCGTTGCGAATTTG--G
*
895974 AAA-CTGAGTTGCGAATTTGGG
1 AAATC-GCGTTGCGAATTT-GG
*
895995 AAATTCGC--TGCGAAATTGG
1 AAA-TCGCGTTGCGAATTTGG
**
896014 AGTTCGCGTTGCGAATTTG
1 AAATCGCGTTGCGAATTTG
896033 TTGGTCATTT
Statistics
Matches: 110, Mismatches: 14, Indels: 28
0.72 0.09 0.18
Matches are distributed among these distances:
18 6 0.05
19 19 0.17
20 71 0.65
21 9 0.08
22 3 0.03
23 2 0.02
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (20 bp):
AAATCGCGTTGCGAATTTGG
Found at i:904809 original size:65 final size:64
Alignment explanation
Indices: 904733--904929 Score: 308
Period size: 64 Copynumber: 3.1 Consensus size: 64
904723 CCCTCAATTT
904733 TCTAATTAATTGATTAATTATTGTTATAGTGTTTAATGTGACGGTTTAGAATGTTGATTTGATTG
1 TCTAATTAATTGATTAATT-TTGTTATAGTGTTTAATGTGACGGTTTAGAATGTTGATTTGATTG
** *
904798 TCTAATTAATTGATTAAATTTTGTTATAGTGTTTAAAATGAC-GTTTAGAATGTTGATTTGATTA
1 TCTAATTAATTGATT-AATTTTGTTATAGTGTTTAATGTGACGGTTTAGAATGTTGATTTGATTG
* *
904862 TCTAATTAAATGATTAATTTTTGTTATAGTGTTTAATGTGATGGTTTAGAATGTT-ATTTGATTG
1 TCTAATTAATTGATTAA-TTTTGTTATAGTGTTTAATGTGACGGTTTAGAATGTTGATTTGATTG
904926 TCTA
1 TCTA
904930 TAAGGATGGC
Statistics
Matches: 121, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
63 2 0.02
64 68 0.56
65 47 0.39
66 4 0.03
ACGTcount: A:0.29, C:0.03, G:0.18, T:0.50
Consensus pattern (64 bp):
TCTAATTAATTGATTAATTTTGTTATAGTGTTTAATGTGACGGTTTAGAATGTTGATTTGATTG
Found at i:906696 original size:54 final size:54
Alignment explanation
Indices: 906634--906896 Score: 382
Period size: 54 Copynumber: 4.9 Consensus size: 54
906624 GATTACCAAA
* * *
906634 TCGGCACTAAGTGTGCAATTCATGGAATTCATCGTATGTTGATGAATAATCGTT
1 TCGGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTT
* *
906688 TCGGCACTAAGTGTGAAATTCACAGAATTCATCATATGTTGATGAATAACCGTT
1 TCGGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTT
* *
906742 TCGACACTAAGTGTGTAATTCACGGAATTCATCATATGTTGATGAATAACCGTT
1 TCGGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTT
*
906796 TCGGCACTAAGTGTGCAATTCACGGAATTCATCATATATTGATGAATAACCGTT
1 TCGGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTT
* * * ** * * *
906850 TCGGCACTATGTTTGTAAACCATGGAATTCATAATATGTTTATGAAT
1 TCGGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAAT
906897 GAGTATTAGC
Statistics
Matches: 189, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 189 1.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (54 bp):
TCGGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTT
Found at i:908332 original size:31 final size:31
Alignment explanation
Indices: 908296--908385 Score: 171
Period size: 31 Copynumber: 2.9 Consensus size: 31
908286 AACTTAAAAG
*
908296 AGTTTTGCAATACTGAAATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
908327 AGTTTTACAATACTGAAATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
908358 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
908386 CCATACAACT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 58 1.00
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.43
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:909788 original size:57 final size:57
Alignment explanation
Indices: 909701--909856 Score: 271
Period size: 57 Copynumber: 2.8 Consensus size: 57
909691 TAACTTTAAT
*
909701 ACAAACCATAT-ATATTTCTAACATGGACCACAAACCATATAATGTTTTGAACATCG
1 ACAAACCATATAATATTTCTAACATAGACCACAAACCATATAATGTTTTGAACATCG
*
909757 ACAAACCATATAATATTTCTAACATAAACCACAAACCATATAATGTTTTGAACATCG
1 ACAAACCATATAATATTTCTAACATAGACCACAAACCATATAATGTTTTGAACATCG
*
909814 ACAAACCATATAATATTTCTAACATAGTCCACAAACC-TATAAT
1 ACAAACCATATAATATTTCTAACATAGACCACAAACCATATAAT
909857 ATTTCTTACA
Statistics
Matches: 95, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
56 17 0.18
57 78 0.82
ACGTcount: A:0.44, C:0.22, G:0.06, T:0.28
Consensus pattern (57 bp):
ACAAACCATATAATATTTCTAACATAGACCACAAACCATATAATGTTTTGAACATCG
Found at i:909793 original size:30 final size:28
Alignment explanation
Indices: 909701--909868 Score: 177
Period size: 27 Copynumber: 5.9 Consensus size: 28
909691 TAACTTTAAT
909701 ACAAACCATAT-ATATTTCTAACATGGACC
1 ACAAACCATATAATATTTCTAACAT--ACC
* *
909730 ACAAACCATATAATGTTT-TGAACAT-CG
1 ACAAACCATATAATATTTCT-AACATACC
909757 ACAAACCATATAATATTTCTAACATAAACC
1 ACAAACCATATAATATTTCTAACAT--ACC
* *
909787 ACAAACCATATAATGTTT-TGAACAT-CG
1 ACAAACCATATAATATTTCT-AACATACC
909814 ACAAACCATATAATATTTCTAACATAGTCC
1 ACAAACCATATAATATTTCTAACATA--CC
*
909844 ACAAACC-TATAATATTTCTTACATA
1 ACAAACCATATAATATTTCTAACATA
909869 ATCAAAAAGA
Statistics
Matches: 119, Mismatches: 9, Indels: 22
0.79 0.06 0.15
Matches are distributed among these distances:
27 46 0.39
28 2 0.02
29 30 0.25
30 41 0.34
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.30
Consensus pattern (28 bp):
ACAAACCATATAATATTTCTAACATACC
Found at i:910976 original size:22 final size:22
Alignment explanation
Indices: 910934--911037 Score: 174
Period size: 22 Copynumber: 4.8 Consensus size: 22
910924 GCATACACAA
*
910934 CAAATACATAACAT-CAAACAG
1 CAAATTCATAACATACAAACAG
*
910955 CAAATTCGTAACATACAAACAG
1 CAAATTCATAACATACAAACAG
910977 CAAATTCATAACATACAAACAG
1 CAAATTCATAACATACAAACAG
*
910999 TAAATTCATAACATACAAACAG
1 CAAATTCATAACATACAAACAG
911021 CAAATTCATAACATACA
1 CAAATTCATAACATACA
911038 TACATATACA
Statistics
Matches: 77, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
21 12 0.16
22 65 0.84
ACGTcount: A:0.54, C:0.22, G:0.05, T:0.19
Consensus pattern (22 bp):
CAAATTCATAACATACAAACAG
Found at i:911047 original size:32 final size:32
Alignment explanation
Indices: 911011--911077 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
911001 AATTCATAAC
* *
911011 ATACAAACAGCAAATTC-ATAACATACATACAT
1 ATACAAACAACAAATACAAT-ACATACATACAT
*
911043 ATACAAACAACAAATACAATATATACATACAT
1 ATACAAACAACAAATACAATACATACATACAT
911075 ATA
1 ATA
911078 TATATAAATC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
32 29 0.94
33 2 0.06
ACGTcount: A:0.57, C:0.19, G:0.01, T:0.22
Consensus pattern (32 bp):
ATACAAACAACAAATACAATACATACATACAT
Found at i:911082 original size:16 final size:17
Alignment explanation
Indices: 911061--911099 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
911051 AACAAATACA
*
911061 ATATATACAT-ACATAT
1 ATATATAAATAACATAT
911077 ATATATAAATCAACATAT
1 ATATATAAAT-AACATAT
911095 ATATA
1 ATATA
911100 ATAGCCTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 9 0.45
18 11 0.55
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.36
Consensus pattern (17 bp):
ATATATAAATAACATAT
Found at i:911427 original size:30 final size:30
Alignment explanation
Indices: 911391--911449 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
911381 GAACACAAGC
*
911391 TCTGCAGTAAGGGGGGAACAGA-GATCGAGG
1 TCTGCAGCAAGGGGGGAACA-ACGATCGAGG
*
911421 TCTGCAGCGAGGGGGGAACAACGATCGAG
1 TCTGCAGCAAGGGGGGAACAACGATCGAG
911450 TGGGGAACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.29, C:0.17, G:0.42, T:0.12
Consensus pattern (30 bp):
TCTGCAGCAAGGGGGGAACAACGATCGAGG
Found at i:911454 original size:18 final size:18
Alignment explanation
Indices: 911428--911462 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
911418 AGGTCTGCAG
911428 CGAGGGGGGAACAACGAT
1 CGAGGGGGGAACAACGAT
*
911446 CGAGTGGGGAACAACGA
1 CGAGGGGGGAACAACGA
911463 AAGGAGAAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.17, G:0.43, T:0.06
Consensus pattern (18 bp):
CGAGGGGGGAACAACGAT
Found at i:911624 original size:10 final size:10
Alignment explanation
Indices: 911606--911645 Score: 71
Period size: 10 Copynumber: 4.0 Consensus size: 10
911596 ATTTTTGTTT
911606 CTTTGAAGAC
1 CTTTGAAGAC
*
911616 CTCTGAAGAC
1 CTTTGAAGAC
911626 CTTTGAAGAC
1 CTTTGAAGAC
911636 CTTTGAAGAC
1 CTTTGAAGAC
911646 GTAAGGCCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.28
Consensus pattern (10 bp):
CTTTGAAGAC
Found at i:912718 original size:65 final size:65
Alignment explanation
Indices: 912645--912773 Score: 197
Period size: 65 Copynumber: 2.0 Consensus size: 65
912635 CTCAATTTTT
*
912645 CTAATTAATTAATTAATTATTT-TTATAGTGTTTAATGTGACCGTTTAGAATGTTGATTTGATTG
1 CTAATTAATTAATT-ATTATTTGTTATAGTGTTTAACGTGACCGTTTAGAATGTTGATTTGATTG
912709 C
65 C
* * **
912710 CTAATTAATTGATTATTTTTTGTTATAGTGTTTAACGTGATGGTTTAGAATGTTGATTTGATTG
1 CTAATTAATTAATTATTATTTGTTATAGTGTTTAACGTGACCGTTTAGAATGTTGATTTGATTG
912774 TCTATAAGGA
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
64 6 0.10
65 52 0.90
ACGTcount: A:0.27, C:0.05, G:0.18, T:0.50
Consensus pattern (65 bp):
CTAATTAATTAATTATTATTTGTTATAGTGTTTAACGTGACCGTTTAGAATGTTGATTTGATTGC
Found at i:913058 original size:30 final size:29
Alignment explanation
Indices: 913022--913081 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 29
913012 ATTAGGTCTG
913022 CGAGAAATTAAATCAAGTTATAAAATTTAT
1 CGAGAAATTAAATCAAGTTA-AAAATTTAT
*
913052 CGAGAAATTAAATCAAGTTACAAATTTAT
1 CGAGAAATTAAATCAAGTTAAAAATTTAT
913081 C
1 C
913082 ATGTGATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 9 0.31
30 20 0.69
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.32
Consensus pattern (29 bp):
CGAGAAATTAAATCAAGTTAAAAATTTAT
Found at i:913402 original size:61 final size:62
Alignment explanation
Indices: 913293--913435 Score: 168
Period size: 62 Copynumber: 2.3 Consensus size: 62
913283 AAAACCCTTA
* * * **
913293 TAAAAAAATCCTTAATTTAAAAAGATTTTGAAAAAATGAGTAATTTAAAAAGTGTCCCTAAT
1 TAAAAAAATCATTAATTTAAAAAGATTTTGAAAAAATGAATAATTTAAAAAATGTCAATAAT
* * *
913355 TAAAAAAATTATTGATTTAAAAAGAATTTT-AAAAAAT-AATAATTTAAAAAATTTCAATAAT
1 TAAAAAAATCATTAATTTAAAAAG-ATTTTGAAAAAATGAATAATTTAAAAAATGTCAATAAT
913416 TAAAAAAA-C-TCTAATTTAAA
1 TAAAAAAATCAT-TAATTTAAA
913436 GATTTGAATC
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
59 1 0.01
60 8 0.12
61 27 0.39
62 28 0.41
63 5 0.07
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.34
Consensus pattern (62 bp):
TAAAAAAATCATTAATTTAAAAAGATTTTGAAAAAATGAATAATTTAAAAAATGTCAATAAT
Found at i:915243 original size:15 final size:15
Alignment explanation
Indices: 915196--915252 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
915186 TATGTACCAT
*
915196 ATTTATGTAATTTTA
1 ATTTATGTTATTTTA
* * * **
915211 TTTTCTGGTATTGAA
1 ATTTATGTTATTTTA
915226 ATTTATGTTATTTTA
1 ATTTATGTTATTTTA
915241 ATTTATGATTAT
1 ATTTATG-TTAT
915253 CCGCGATCAA
Statistics
Matches: 30, Mismatches: 11, Indels: 1
0.71 0.26 0.02
Matches are distributed among these distances:
15 26 0.87
16 4 0.13
ACGTcount: A:0.28, C:0.02, G:0.11, T:0.60
Consensus pattern (15 bp):
ATTTATGTTATTTTA
Found at i:916692 original size:13 final size:13
Alignment explanation
Indices: 916676--916723 Score: 78
Period size: 13 Copynumber: 3.7 Consensus size: 13
916666 TTTGACGCGT
916676 ATTTATGACACAC
1 ATTTATGACACAC
*
916689 ATTTGTGACACAC
1 ATTTATGACACAC
*
916702 ATTTATGACACGC
1 ATTTATGACACAC
916715 ATTTATGAC
1 ATTTATGAC
916724 GTTCATTGAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.33
Consensus pattern (13 bp):
ATTTATGACACAC
Found at i:924524 original size:26 final size:27
Alignment explanation
Indices: 924462--924524 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 27
924452 ACGTGAGAAT
*
924462 AATAAATAAAACAAGAAAAGAATGGAA
1 AATAAATAAAACAAGAAAAGAATGAAA
* *
924489 AAT-AACAAAACATGTAAAA-AAT-AAA
1 AATAAATAAAACAAG-AAAAGAATGAAA
924514 AATAAATAAAA
1 AATAAATAAAA
924525 AAAACAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
25 5 0.17
26 18 0.60
27 7 0.23
ACGTcount: A:0.73, C:0.05, G:0.08, T:0.14
Consensus pattern (27 bp):
AATAAATAAAACAAGAAAAGAATGAAA
Found at i:924525 original size:18 final size:18
Alignment explanation
Indices: 924503--924542 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
924493 ACAAAACATG
*
924503 TAAAAAATA-AAAATAAA
1 TAAAAAAAACAAAATAAA
*
924520 TAAAAAAAACAAAATGAA
1 TAAAAAAAACAAAATAAA
924538 TAAAA
1 TAAAA
924543 TGTTAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.15
Consensus pattern (18 bp):
TAAAAAAAACAAAATAAA
Found at i:924619 original size:18 final size:17
Alignment explanation
Indices: 924586--924632 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 17
924576 TATTAATGGA
924586 GTAAAAAAAATAAAAAG
1 GTAAAAAAAATAAAAAG
*
924603 GTAAAAGAAATTAAAAAG
1 GTAAAA-AAAATAAAAAG
*
924621 G-AATAAAAATAA
1 GTAAAAAAAATAA
924633 TGTGTACATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 6 0.23
17 9 0.35
18 11 0.42
ACGTcount: A:0.72, C:0.00, G:0.13, T:0.15
Consensus pattern (17 bp):
GTAAAAAAAATAAAAAG
Found at i:924818 original size:52 final size:51
Alignment explanation
Indices: 924739--924836 Score: 128
Period size: 52 Copynumber: 1.9 Consensus size: 51
924729 AGAAAAAAAC
* *
924739 AATAGAAAAAAATAAAATAAAGTAAAAATATAATATATATA-TAAATAAATA
1 AATAGAAAAAAATAAAATAAAGAAAAAATAT-ATATACATAGTAAATAAATA
*
924790 AATA-AAAAAAATAGAATATTAAGAAAAAATATATATACATAGTAAAT
1 AATAGAAAAAAATA-AA-ATAAAGAAAAAATATATATACATAGTAAAT
924837 GGAGAAAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
50 9 0.22
51 14 0.34
52 18 0.44
ACGTcount: A:0.68, C:0.01, G:0.05, T:0.26
Consensus pattern (51 bp):
AATAGAAAAAAATAAAATAAAGAAAAAATATATATACATAGTAAATAAATA
Found at i:924938 original size:21 final size:22
Alignment explanation
Indices: 924881--924947 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 22
924871 AAGATATATA
924881 AAATAAAAATAATATAATAGAAAT
1 AAATAAAAA-AATATAATA-AAAT
* *
924905 AAA-AAAAGGAATATAGT-AAAT
1 AAATAAAA-AAATATAATAAAAT
924926 AAATAAAAAAATATAATTAAAA
1 AAATAAAAAAATATAA-TAAAA
924948 ATATATATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
21 13 0.37
22 5 0.14
23 14 0.40
24 3 0.09
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (22 bp):
AAATAAAAAAATATAATAAAAT
Found at i:926477 original size:110 final size:110
Alignment explanation
Indices: 926324--926533 Score: 294
Period size: 110 Copynumber: 1.9 Consensus size: 110
926314 TGGAACTAGG
* * * *
926324 AAATTGTTTGTTGACAGCCAGCCGCCCCTTCGCTGTGAGGTTGAGCTTGTGTTGTCTCGAGTTCA
1 AAATTGCTTGTTGACAACCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCA
* * *
926389 ATATCCTTCGCTGTGAATTTGAAATTGACTCTGAATGAAACTGAA
66 ATATCCCTCGCTGTGAAGTTAAAATTGACTCTGAATGAAACTGAA
* * * * *
926434 AAATTGCTTGTTGACAATCAGTCGCCCTTTCGTTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCCA
1 AAATTGCTTGTTGACAACCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCA
* *
926499 ATATCCCTCGCTGTTAAGTTAAAATTGGCTCTGAA
66 ATATCCCTCGCTGTGAAGTTAAAATTGACTCTGAA
926534 ACTGGGAAGC
Statistics
Matches: 86, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
110 86 1.00
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (110 bp):
AAATTGCTTGTTGACAACCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCA
ATATCCCTCGCTGTGAAGTTAAAATTGACTCTGAATGAAACTGAA
Found at i:927365 original size:67 final size:65
Alignment explanation
Indices: 927249--927431 Score: 206
Period size: 65 Copynumber: 2.8 Consensus size: 65
927239 AAGATATCTG
* * * **
927249 TTGTTTCATGA-AAACGGTCTCAAGGGAAAAAAAATTTTGTTTTAAGGGAAATAAATTTGAAGAT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAA-TTTGTTTTAAGGGAAATAAATTCAAAGA-
927313 TT
64 TT
* * *
927315 TGTGTTTTAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGAT
1 T-TGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTTGTTTTAAGGGAAATAAATTCAAAGAT
927380 T
65 T
* * ** * *
927381 TTGTTTCAAGGGAAACTGTCTCAAGAGAGATGAAATTTGTTTCAAGAGAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTTGTTTTAAGGGAAA
927432 CTGTCTCAAG
Statistics
Matches: 99, Mismatches: 16, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
65 42 0.42
66 4 0.04
67 33 0.33
68 20 0.20
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (65 bp):
TTGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTTGTTTTAAGGGAAATAAATTCAAAGATT
Found at i:927432 original size:36 final size:36
Alignment explanation
Indices: 927380--927603 Score: 189
Period size: 36 Copynumber: 6.4 Consensus size: 36
927370 ATTCAAAGAT
927380 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGATGAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGATGAAA
* **
927416 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGATGAAA
* * **
927452 CTTAGTTCCAAAAGAAACTGTCTCAAG-GAGATGAAA
1 -TTTGTTTCAAGGGAAACTGTCTCAAGAGAGATGAAA
*** *
927488 TTTGTTTCAAATAAAACATAT-TC---A-A-AT--AA
1 TTTGTTTCAAGGGAAAC-TGTCTCAAGAGAGATGAAA
**
927517 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGAAAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGATGAAA
* * * * *
927553 TTTATTGCAAGGGAAACT-TCTTAAGAGAAACGAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGATGAAA
*
927588 TTTATTTCAAGGGAAA
1 TTTGTTTCAAGGGAAA
927604 TGTTTTCAAT
Statistics
Matches: 152, Mismatches: 25, Indels: 23
0.76 0.12 0.12
Matches are distributed among these distances:
28 2 0.01
29 18 0.12
31 2 0.01
32 2 0.01
33 1 0.01
34 1 0.01
35 43 0.28
36 60 0.39
37 23 0.15
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.28
Consensus pattern (36 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGATGAAA
Found at i:927589 original size:35 final size:36
Alignment explanation
Indices: 927515--927603 Score: 119
Period size: 35 Copynumber: 2.5 Consensus size: 36
927505 ATATTCAAAT
*
927515 AATTTGTTTCAAGGGAAACTGTCTCAAGAGAGAAAA
1 AATTTATTTCAAGGGAAACTGTCTCAAGAGAGAAAA
* * *
927551 AATTTATTGCAAGGGAAACT-TCTTAAGAGA-AACGA
1 AATTTATTTCAAGGGAAACTGTCTCAAGAGAGAA-AA
927586 AATTTATTTCAAGGGAAA
1 AATTTATTTCAAGGGAAA
927604 TGTTTTCAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
34 2 0.04
35 27 0.57
36 18 0.38
ACGTcount: A:0.43, C:0.10, G:0.20, T:0.27
Consensus pattern (36 bp):
AATTTATTTCAAGGGAAACTGTCTCAAGAGAGAAAA
Found at i:929373 original size:13 final size:13
Alignment explanation
Indices: 929353--929416 Score: 71
Period size: 13 Copynumber: 5.0 Consensus size: 13
929343 TTTTCTTTAA
929353 TTTT-TCTTTGTT
1 TTTTCTCTTTGTT
929365 TTTTCTCTTT-TT
1 TTTTCTCTTTGTT
929377 ATTTTCTCTTTGCTT
1 -TTTTCTCTTTG-TT
929392 TTTTCTCTTT-TT
1 TTTTCTCTTTGTT
* *
929404 TTCTCTTTTTGTT
1 TTTTCTCTTTGTT
929417 CTGATTGAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
12 16 0.36
13 17 0.38
14 10 0.22
15 2 0.04
ACGTcount: A:0.02, C:0.16, G:0.05, T:0.78
Consensus pattern (13 bp):
TTTTCTCTTTGTT
Found at i:929377 original size:26 final size:27
Alignment explanation
Indices: 929352--929403 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
929342 TTTTTCTTTA
929352 ATTTT-TCTTTG-TTTTTTCTCTTTTT
1 ATTTTCTCTTTGCTTTTTTCTCTTTTT
929377 ATTTTCTCTTTGCTTTTTTCTCTTTTT
1 ATTTTCTCTTTGCTTTTTTCTCTTTTT
929404 TTCTCTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 5 0.20
26 6 0.24
27 14 0.56
ACGTcount: A:0.04, C:0.15, G:0.04, T:0.77
Consensus pattern (27 bp):
ATTTTCTCTTTGCTTTTTTCTCTTTTT
Found at i:929405 original size:24 final size:24
Alignment explanation
Indices: 929340--929411 Score: 78
Period size: 24 Copynumber: 3.0 Consensus size: 24
929330 ATCTTGTTTT
*
929340 CTTTTTTCT-TTAATTTT-TCTTTG
1 CTTTTTTCTCTT-TTTTTCTCTTTG
929363 -TTTTTTCTCTTTTTATTTTCTCTTTG
1 CTTTTTTCTC--TTT-TTTTCTCTTTG
929389 CTTTTTTCTCTTTTTTTCTCTTT
1 CTTTTTTCTCTTTTTTTCTCTTT
929412 TTGTTCTGAT
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
22 8 0.19
24 10 0.24
25 9 0.21
26 6 0.14
27 9 0.21
ACGTcount: A:0.04, C:0.17, G:0.03, T:0.76
Consensus pattern (24 bp):
CTTTTTTCTCTTTTTTTCTCTTTG
Found at i:929413 original size:11 final size:11
Alignment explanation
Indices: 929353--929418 Score: 55
Period size: 11 Copynumber: 5.6 Consensus size: 11
929343 TTTTCTTTAA
929353 TTTTTCT-TTGT
1 TTTTTCTCTT-T
929364 TTTTTCTCTTTT
1 TTTTTCTC-TTT
929376 TATTTTCTCTTT
1 T-TTTTCTCTTT
929388 GCTTTTT-TCTCTT
1 --TTTTTCTCT-TT
929401 TTTTTCTCTTT
1 TTTTTCTCTTT
*
929412 TTGTTCT
1 TTTTTCT
929419 GATTGAATCT
Statistics
Matches: 47, Mismatches: 1, Indels: 14
0.76 0.02 0.23
Matches are distributed among these distances:
11 20 0.43
12 11 0.23
13 15 0.32
14 1 0.02
ACGTcount: A:0.02, C:0.17, G:0.05, T:0.77
Consensus pattern (11 bp):
TTTTTCTCTTT
Found at i:929414 original size:26 final size:26
Alignment explanation
Indices: 929357--929416 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
929347 CTTTAATTTT
*
929357 TCTTTGTTTTTTCTCTTTTTATTTTC
1 TCTTTGTTTTTTCTCTTTTTATTCTC
929383 TCTTTGCTTTTTTCTCTTTTT-TTCTC
1 TCTTTG-TTTTTTCTCTTTTTATTCTC
*
929409 TTTTTGTT
1 TCTTTGTT
929417 CTGATTGAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
25 2 0.06
26 15 0.48
27 14 0.45
ACGTcount: A:0.02, C:0.17, G:0.05, T:0.77
Consensus pattern (26 bp):
TCTTTGTTTTTTCTCTTTTTATTCTC
Found at i:932529 original size:26 final size:25
Alignment explanation
Indices: 932465--932529 Score: 69
Period size: 26 Copynumber: 2.6 Consensus size: 25
932455 CAAACGTTAG
*
932465 AATAATAAATAAAACAAGAAAAAAT
1 AATAAAAAATAAAACAAGAAAAAAT
* * *
932490 AGA-AAATAACAAAACACGTAAAAAAT
1 A-ATAAAAAATAAAACAAG-AAAAAAT
932516 AATAAAAAATAAAA
1 AATAAAAAATAAAA
932530 ATAAACAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
25 13 0.42
26 18 0.58
ACGTcount: A:0.75, C:0.06, G:0.05, T:0.14
Consensus pattern (25 bp):
AATAAAAAATAAAACAAGAAAAAAT
Found at i:932623 original size:18 final size:17
Alignment explanation
Indices: 932593--932637 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
932583 TTAAAGGAGT
932593 AAAAAAATAAAAAAGGC
1 AAAAAAATAAAAAAGGC
*
932610 AAAAGAAATTAAAAAGG-
1 AAAA-AAATAAAAAAGGC
932627 AATAAAAATAA
1 AA-AAAAATAA
932638 TGTGTACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.76, C:0.02, G:0.11, T:0.11
Consensus pattern (17 bp):
AAAAAAATAAAAAAGGC
Found at i:932911 original size:8 final size:8
Alignment explanation
Indices: 932898--932947 Score: 55
Period size: 8 Copynumber: 6.2 Consensus size: 8
932888 AGAAAAATTA
*
932898 ATACATCT
1 ATACATAT
932906 ATACATAT
1 ATACATAT
*
932914 ATATATAT
1 ATACATAT
*
932922 ATATATAT
1 ATACATAT
*
932930 ATATATAT
1 ATACATAT
*
932938 ATATATAT
1 ATACATAT
932946 AT
1 AT
932948 GATATAAGAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 40 1.00
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (8 bp):
ATACATAT
Found at i:932917 original size:2 final size:2
Alignment explanation
Indices: 932905--932964 Score: 86
Period size: 2 Copynumber: 30.0 Consensus size: 2
932895 TTAATACATC
*
932905 TA TA CA 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
*
932947 TGA TA TA -A GA TA TA TA TA
1 T-A TA TA TA TA TA TA TA TA
932965 ATAAAAATAA
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
1 1 0.02
2 50 0.94
3 2 0.04
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (2 bp):
TA
Found at i:932968 original size:14 final size:15
Alignment explanation
Indices: 932910--932983 Score: 82
Period size: 14 Copynumber: 5.1 Consensus size: 15
932900 ACATCTATAC
932910 ATATATATAT-ATAT
1 ATATATATATAATAT
932924 ATATATATAT-ATAT
1 ATATATATATAATAT
*
932938 ATATATATATGATAT
1 ATATATATATAATAT
* *
932953 AAGATATATATAATAA
1 -ATATATATATAATAT
*
932969 AAATA-ATATAATAT
1 ATATATATATAATAT
932983 A
1 A
932984 AATAAAAAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
14 33 0.62
15 8 0.15
16 12 0.23
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (15 bp):
ATATATATATAATAT
Found at i:932974 original size:20 final size:20
Alignment explanation
Indices: 932951--933033 Score: 59
Period size: 20 Copynumber: 4.2 Consensus size: 20
932941 TATATATGAT
932951 ATAAGAT-ATATATAATAAAA
1 ATAAGATAATATA-AATAAAA
*
932971 ATAATATAATATAAATAAAA
1 ATAAGATAATATAAATAAAA
*
932991 AAAAGGA-ATATAGTAAATAAATA
1 ATAA-GATA-ATA-TAAATAAA-A
*
933014 A-AA-A-AATATAATTAAAA
1 ATAAGATAATATAAATAAAA
933031 ATA
1 ATA
933034 TATATATAGG
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
17 2 0.04
18 8 0.15
19 3 0.06
20 19 0.36
21 9 0.17
22 10 0.19
23 2 0.04
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.27
Consensus pattern (20 bp):
ATAAGATAATATAAATAAAA
Found at i:932988 original size:14 final size:15
Alignment explanation
Indices: 932905--932987 Score: 89
Period size: 16 Copynumber: 5.5 Consensus size: 15
932895 TTAATACATC
*
932905 TATACATATATAT-A
1 TATAAATATATATAA
*
932919 TATATATATATATATA
1 TATAAATATATATA-A
* *
932935 TATATATATATATGA
1 TATAAATATATATAA
932950 TATAAGATATATATAA
1 TATAA-ATATATATAA
*
932966 TAAAAATA-ATATAA
1 TATAAATATATATAA
932980 TATAAATA
1 TATAAATA
932988 AAAAAAAGGA
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
14 25 0.42
15 8 0.13
16 27 0.45
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.41
Consensus pattern (15 bp):
TATAAATATATATAA
Found at i:933023 original size:21 final size:23
Alignment explanation
Indices: 932956--933023 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 23
932946 ATGATATAAG
* *
932956 ATATATAT-AATAAAAATAATAT
1 ATATAAATAAATAAAAAGAATAT
932978 AATATAAATAAA-AAAAAGGAATAT
1 -ATATAAATAAATAAAAA-GAATAT
*
933002 A-GTAAATAAATAAAAA-AATAT
1 ATATAAATAAATAAAAAGAATAT
933023 A
1 A
933024 ATTAAAAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
21 6 0.15
22 8 0.21
23 18 0.46
24 7 0.18
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.26
Consensus pattern (23 bp):
ATATAAATAAATAAAAAGAATAT
Found at i:933029 original size:22 final size:23
Alignment explanation
Indices: 932964--933029 Score: 75
Period size: 22 Copynumber: 2.9 Consensus size: 23
932954 AGATATATAT
*
932964 AATAAAAATAATATAATATAAATA
1 AATAAAAAGAATATAAT-TAAATA
*
932988 AA-AAAAAGGAATAT-AGTAAATA
1 AATAAAAA-GAATATAATTAAATA
933010 AATAAAAA-AATATAATTAAA
1 AATAAAAAGAATATAATTAAA
933030 AATATATATA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
21 5 0.14
22 13 0.36
23 11 0.31
24 7 0.19
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (23 bp):
AATAAAAAGAATATAATTAAATA
Found at i:933033 original size:24 final size:23
Alignment explanation
Indices: 932964--933030 Score: 68
Period size: 23 Copynumber: 2.9 Consensus size: 23
932954 AGATATATAT
*
932964 AATAAAAATAATATAATATAAATA
1 AATAAAAAGAATATAATA-AAATA
*
932988 AA-AAAAAGGAATATAGT-AAATA
1 AATAAAAA-GAATATAATAAAATA
933010 AATAAAAA-AATATAATTAAAA
1 AATAAAAAGAATATAA-TAAAA
933031 ATATATATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
21 6 0.17
22 8 0.22
23 13 0.36
24 9 0.25
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (23 bp):
AATAAAAAGAATATAATAAAATA
Found at i:940215 original size:14 final size:14
Alignment explanation
Indices: 940196--940222 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
940186 TCTGCTAAAT
940196 GAGATAAAGAAAAC
1 GAGATAAAGAAAAC
940210 GAGATAAAGAAAA
1 GAGATAAAGAAAA
940223 TGAAAAAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.04, G:0.22, T:0.07
Consensus pattern (14 bp):
GAGATAAAGAAAAC
Found at i:944505 original size:23 final size:23
Alignment explanation
Indices: 944479--944523 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
944469 AAATTTGAAA
*
944479 TAATTTATTATTT-TGACTAAATT
1 TAATATATT-TTTGTGACTAAATT
*
944502 TAATATGTTTTTGTGACTAAAT
1 TAATATATTTTTGTGACTAAAT
944524 AAATGTTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.53
Consensus pattern (23 bp):
TAATATATTTTTGTGACTAAATT
Found at i:944657 original size:32 final size:33
Alignment explanation
Indices: 944583--944657 Score: 80
Period size: 32 Copynumber: 2.3 Consensus size: 33
944573 ATTTTTATAT
* * * *
944583 TGAGAAATTAGAATTTTTTATAAAGTGTTATTA
1 TGAGAAAATAGAATTTGTCATAAAGTATTATTA
** *
944616 TGATTAAATA-AATTTGTCATAATGTATTATTA
1 TGAGAAAATAGAATTTGTCATAAAGTATTATTA
944648 TGAGAAAATA
1 TGAGAAAATA
944658 TTGTAACTAC
Statistics
Matches: 33, Mismatches: 9, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
32 26 0.79
33 7 0.21
ACGTcount: A:0.43, C:0.01, G:0.13, T:0.43
Consensus pattern (33 bp):
TGAGAAAATAGAATTTGTCATAAAGTATTATTA
Found at i:944700 original size:200 final size:195
Alignment explanation
Indices: 944270--944743 Score: 542
Period size: 200 Copynumber: 2.4 Consensus size: 195
944260 TTTGGTGACG
* * * * * *
944270 AAATAAATTTTACATAATTTCTTATTTTGAATAAATTTAATATGTTATTGTGACTAAATAATTTT
1 AAATAAATTTAAAATAATTTATTATTTTGACTAAATTTAATATGTTATTGTGACTAAATAAATGT
* * *
944335 TTTACAATTTATTATTTTGAAAAGATTATTATTTATCATAATTTTATATTGATATTTAATATTTA
66 TTCACAATTTATTATTTTGAAAAGATTATTATTTATCATAATTTTATATTGAAAATTAATATTTA
* * * *
944400 TTATAAATAGTTATTATGATTAAGTAATGTATCAAAAAAAATTATTTTGAAAAAATGTTGTCACT
131 TTATAAATAGTTATTATGATTAAATAATGTATCAAAAAAAATTATTATGAAAAAATATTGTAACT
* *
944465 AAATAAATTTGAAATAATTTATTATTTTGACTAAATTTAATATGTTTTTGTGACTAAATAAATGT
1 AAATAAATTTAAAATAATTTATTATTTTGACTAAATTTAATATGTTATTGTGACTAAATAAATGT
* * * *
944530 TTCACAATTTTTTTTTTATTGTGAAAGA-TATTATTTTTCATAAATTTTTATATTGAGAAATTAG
66 TTCACAA-TTTATTATT-TTG-AAAAGATTATTATTTATCAT-AA-TTTTATATTGA-AAATTA-
* * * * *** *
944594 A-ATTTTTTATAAAGT-GTTATTATGATTAAATAAATTTGTCATAATGTATTATTATGAGAAAAT
124 ATATTTATTATAAA-TAGTTATTATGATTAAAT-AATGTATCAAAAAAAATTATTATGAAAAAAT
944657 ATTGTAACT
187 ATTGTAACT
* * * *
944666 ACATAAATTTAAAAT-ATTTTTTATTTTGACTAAATTTAATATATTATTGTGACTAAATAAATCT
1 AAATAAATTTAAAATAATTTATTATTTTGACTAAATTTAATATGTTATTGTGACTAAATAAATGT
* *
944730 GTCATAATTTATTA
66 TTCACAATTTATTA
944744 ATTAAAAAAT
Statistics
Matches: 234, Mismatches: 36, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
195 64 0.27
196 7 0.03
197 15 0.06
198 7 0.03
199 16 0.07
200 80 0.34
201 45 0.19
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (195 bp):
AAATAAATTTAAAATAATTTATTATTTTGACTAAATTTAATATGTTATTGTGACTAAATAAATGT
TTCACAATTTATTATTTTGAAAAGATTATTATTTATCATAATTTTATATTGAAAATTAATATTTA
TTATAAATAGTTATTATGATTAAATAATGTATCAAAAAAAATTATTATGAAAAAATATTGTAACT
Found at i:946331 original size:2 final size:2
Alignment explanation
Indices: 946279--946313 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
946269 ATAGATTTTA
946279 AT AT AT AT 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 AT AT AT AT A
946314 ATAATAAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:949625 original size:188 final size:191
Alignment explanation
Indices: 949374--949731 Score: 485
Period size: 188 Copynumber: 1.9 Consensus size: 191
949364 ATTTATATAT
* **
949374 ACGTCACTATATAATTAATATTCAATGACAACTAATTATGTCACTAAATTATGTAAAATTTCGTT
1 ACGTCACTATATAATTAATATTCAATGACAACTAATTAAGTCACTAAATTAAATAAAATTTCGTT
* * *
949439 ATTGATGATTTATATCGTCAC-GGATAATACATTAAAATTAACCTATATGTGACG-AAAGAGATA
66 ATTGATCATTTATATCGTCACAAG-TAATACATTAAAATCAACCTATATGTGA-GAAAAGAGATA
949502 TTGTCAAATTTTTAGTGAC--AATATAAT-G-TACCTAATAATTATAAATGATGATTATGCATA
129 TTGTCAAATTTTTAGTGACATAATAT-ATCGTTACCTAATAATTATAAATGATGATTATGCATA
* * * ** ** *
949562 ACGTCACTTTATAATTTATATTCTATGACAGTTGGTTAAGTCACTAAATTAAATAAGATTTCGTT
1 ACGTCACTATATAATTAATATTCAATGACAACTAATTAAGTCACTAAATTAAATAAAATTTCGTT
* * *
949627 ATTGATCATTTATATTGTCACAAGTAATGCATTAAAATCAACTTATATGTGAGAAAAGAGATATT
66 ATTGATCATTTATATCGTCACAAGTAATACATTAAAATCAACCTATATGTGAGAAAAGAGATATT
*
949692 GTCACATTTTTAGTGACATAATATATCGTTACCTAATAAT
131 GTCAAATTTTTAGTGACATAATATATCGTTACCTAATAAT
949732 ATTATGAATG
Statistics
Matches: 146, Mismatches: 18, Indels: 9
0.84 0.10 0.05
Matches are distributed among these distances:
187 1 0.01
188 125 0.86
189 3 0.02
190 6 0.04
191 11 0.08
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (191 bp):
ACGTCACTATATAATTAATATTCAATGACAACTAATTAAGTCACTAAATTAAATAAAATTTCGTT
ATTGATCATTTATATCGTCACAAGTAATACATTAAAATCAACCTATATGTGAGAAAAGAGATATT
GTCAAATTTTTAGTGACATAATATATCGTTACCTAATAATTATAAATGATGATTATGCATA
Found at i:950543 original size:19 final size:18
Alignment explanation
Indices: 950517--950616 Score: 87
Period size: 18 Copynumber: 5.4 Consensus size: 18
950507 ATAATTATTA
950517 AAAATTAGAAAAATATAG
1 AAAATTAGAAAAATATAG
*
950535 AAAATTTAGATAAATATATCG
1 AAAA-TTAGA-AAA-ATATAG
*** *
950556 CAGGGTTAGAAATAT-TAG
1 -AAAATTAGAAAAATATAG
950574 AAAATTAGAAAAATATTA-
1 AAAATTAGAAAAATA-TAG
*
950592 AAAATTAGAAAAATTTAG
1 AAAATTAGAAAAATATAG
950610 AAAATTA
1 AAAATTA
950617 CCTCCAAGTT
Statistics
Matches: 64, Mismatches: 11, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
17 12 0.19
18 27 0.42
19 9 0.14
20 5 0.08
21 10 0.16
22 1 0.02
ACGTcount: A:0.58, C:0.02, G:0.12, T:0.28
Consensus pattern (18 bp):
AAAATTAGAAAAATATAG
Found at i:950582 original size:8 final size:8
Alignment explanation
Indices: 950561--950616 Score: 51
Period size: 9 Copynumber: 6.4 Consensus size: 8
950551 TATCGCAGGG
950561 TTAGAAATA
1 TTAGAAA-A
950570 TTAGAAAA
1 TTAGAAAA
950578 TTAGAAAAATA
1 TTAG--AAA-A
950589 TTA-AAAA
1 TTAGAAAA
950596 TTAGAAAAA
1 TTAG-AAAA
950605 TTTAGAAAA
1 -TTAGAAAA
950614 TTA
1 TTA
950617 CCTCCAAGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 13
0.76 0.00 0.24
Matches are distributed among these distances:
7 4 0.10
8 11 0.27
9 15 0.37
10 7 0.17
11 4 0.10
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (8 bp):
TTAGAAAA
Found at i:951012 original size:18 final size:19
Alignment explanation
Indices: 950977--951013 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
950967 CACGGAATGT
950977 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
950997 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
951014 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:951847 original size:22 final size:22
Alignment explanation
Indices: 951816--951899 Score: 96
Period size: 22 Copynumber: 3.8 Consensus size: 22
951806 ACTTACTTTC
951816 TATATATTAAATAATTTATTAA
1 TATATATTAAATAATTTATTAA
* * * **
951838 TATATTTTAATTAACTTACTTTC
1 TATATATTAAATAATTTA-TTAA
951861 TATATATTAAATAATTTATTAA
1 TATATATTAAATAATTTATTAA
* *
951883 TATATTTTAAAGAATTT
1 TATATATTAAATAATTT
951900 TTTTGGATTG
Statistics
Matches: 49, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
22 32 0.65
23 17 0.35
ACGTcount: A:0.43, C:0.04, G:0.01, T:0.52
Consensus pattern (22 bp):
TATATATTAAATAATTTATTAA
Found at i:951859 original size:45 final size:45
Alignment explanation
Indices: 951804--951892 Score: 178
Period size: 45 Copynumber: 2.0 Consensus size: 45
951794 AATAATTTAC
951804 TAACTTACTTTCTATATATTAAATAATTTATTAATATATTTTAAT
1 TAACTTACTTTCTATATATTAAATAATTTATTAATATATTTTAAT
951849 TAACTTACTTTCTATATATTAAATAATTTATTAATATATTTTAA
1 TAACTTACTTTCTATATATTAAATAATTTATTAATATATTTTAA
951893 AGAATTTTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (45 bp):
TAACTTACTTTCTATATATTAAATAATTTATTAATATATTTTAAT
Found at i:953677 original size:14 final size:14
Alignment explanation
Indices: 953658--953685 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
953648 TATATTGCAG
953658 TTAGTTTTAAAATA
1 TTAGTTTTAAAATA
953672 TTAGTTTTAAAATA
1 TTAGTTTTAAAATA
953686 AGTTATGATT
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:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
TTAGTTTTAAAATA
Found at i:956618 original size:21 final size:24
Alignment explanation
Indices: 956594--956638 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
956584 TAATCCTCTT
956594 TACT-ATTTT-TTT-AAATAAATC
1 TACTGATTTTATTTCAAATAAATC
956615 TACTGATTTTATTTCGAAATAAAT
1 TACTGATTTTATTTC-AAATAAAT
956639 AAAATAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 4 0.20
22 5 0.25
23 3 0.15
25 8 0.40
ACGTcount: A:0.38, C:0.09, G:0.04, T:0.49
Consensus pattern (24 bp):
TACTGATTTTATTTCAAATAAATC
Found at i:957349 original size:3 final size:3
Alignment explanation
Indices: 957335--957385 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
957325 TATTGTAAAG
* * * *
957335 TAA TAT TAA TAA TAA TAA TAA TAA CAA TAA TAC T-A TAG TATA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
957380 TAA TAA
1 TAA TAA
957386 ATATAATATA
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
2 1 0.03
3 35 0.92
4 2 0.05
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Done.