Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_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: 15077257
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 41 of 62
Found at i:8835747 original size:79 final size:79
Alignment explanation
Indices: 8835650--8835954 Score: 396
Period size: 79 Copynumber: 3.9 Consensus size: 79
8835640 CAATTATAGC
* * * * * *
8835650 ATTCTTTTAGGTTGATAATGCACCCATATGCATTTCAACGT-TGGCATCCTATCATGCCAATAAT
1 ATTCTTTTATGCTGATAATGAACCCATATGCATTTCAGC-TATGACATCCTTTCATGCCAATAAT
8835714 GCACCCATATGCATT
65 GCACCCATATGCATT
* *
8835729 ATTCTTTTATGCTGATAATGAACCCATATACATTTCAGCTATGACATTCTTTCATGCCAATAATG
1 ATTCTTTTATGCTGATAATGAACCCATATGCATTTCAGCTATGACATCCTTTCATGCCAATAATG
* *
8835794 CACCTACATGCATT
66 CACCCATATGCATT
* * * * * *
8835808 ATTCTTTTATGCTGATAATGCATCTATATGCATTTCAGCTATGATATCTTTTCTTGCCAATAATG
1 ATTCTTTTATGCTGATAATGAACCCATATGCATTTCAGCTATGACATCCTTTCATGCCAATAATG
* *
8835873 CACTCATACGCATT
66 CACCCATATGCATT
* * * *
8835887 ATTCTTTTATGATGATAATGAACCAATATGCATTTCAGCTATGGCATCCTTTCATACCAATAATG
1 ATTCTTTTATGCTGATAATGAACCCATATGCATTTCAGCTATGACATCCTTTCATGCCAATAATG
8835952 CAC
66 CAC
8835955 ACACAGTGCC
Statistics
Matches: 194, Mismatches: 31, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
78 1 0.01
79 193 0.99
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (79 bp):
ATTCTTTTATGCTGATAATGAACCCATATGCATTTCAGCTATGACATCCTTTCATGCCAATAATG
CACCCATATGCATT
Found at i:8840802 original size:2 final size:2
Alignment explanation
Indices: 8840795--8840845 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
8840785 TGGGCTTGTA
8840795 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8840837 AT AT AT AT A
1 AT AT AT AT A
8840846 ATAATAATAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8840851 original size:3 final size:3
Alignment explanation
Indices: 8840843--8840901 Score: 66
Period size: 3 Copynumber: 19.3 Consensus size: 3
8840833 ATATATATAT
* * *
8840843 ATA ATA ATA ATA ATA ATA ATA ATA ATA TTTA GTA ATA ATA A-A TTTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA -ATA
8840889 ATA ATA ATA ATA A
1 ATA ATA ATA ATA A
8840902 AATTTAAATG
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
2 1 0.02
3 44 0.92
4 3 0.06
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:8841155 original size:76 final size:76
Alignment explanation
Indices: 8841029--8841836 Score: 1544
Period size: 76 Copynumber: 10.6 Consensus size: 76
8841019 GATGGAAATG
* *
8841029 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGAT
8841094 CCCGAAGGCTT
66 CCCGAAGGCTT
* *
8841105 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGAT
8841170 CCCGAAGGCTT
66 CCCGAAGGCTT
*
8841181 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGAT
8841246 CCCGAAGGCTT
66 CCCGAAGGCTT
8841257 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGAT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGAT
8841322 CCCGAAGGCTT
66 CCCGAAGGCTT
8841333 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGAT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGAT
8841398 CCCGAAGGCTT
66 CCCGAAGGCTT
8841409 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGAT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGAT
8841474 CCCGAAGGCTT
66 CCCGAAGGCTT
*
8841485 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGAT
8841550 CCCGAAGGCTT
66 CCCGAAGGCTT
*
8841561 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGAT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGAT
8841626 CCCGAAGGCTT
66 CCCGAAGGCTT
8841637 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGAT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGAT
8841702 CCCGAAGGCTT
66 CCCGAAGGCTT
*
8841713 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGATTTGAAAACATCAAAAAGAT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGAT
8841778 CCCGAAGGCTT
66 CCCGAAGGCTT
8841789 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTT
8841837 TTGGAAACAT
Statistics
Matches: 724, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 724 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (76 bp):
TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGAT
CCCGAAGGCTT
Found at i:8842146 original size:164 final size:167
Alignment explanation
Indices: 8841873--8842202 Score: 513
Period size: 171 Copynumber: 2.0 Consensus size: 167
8841863 TACAGATGTG
* * *
8841873 GGAAATAGTTTATTAAGTAAAAAAACTAAGGAAATCGTTTTCTTACTTTTCAACAATTTCATTTT
1 GGAAATAGTTTACTAAGTAAAAAAACTAAGAAAATCATTTTCTTACTTTTCAACAATTTCATTTT
** *
8841938 TAGAAAAGATTGAATGAGAAACTATGGAAATCGTTTTCTCATTA-TTTTTCAAAATAACATGTTG
66 TAGAAAAGATAAAATGAGAAACTATGAAAATCGTTTTCTCATTATTTTTTCAAAATAACATGTTG
8842002 ATTGGGTAACATGCCCCAATCTCAAGATAAGGTTGTT
131 ATTGGGTAACATGCCCCAATCTCAAGATAAGGTTGTT
8842039 GGAAATAGTTTACTAAGT-AAAAAACTAAGAAAATCATTTTCTTACTTTTCAACAATTTCA-TTT
1 GGAAATAGTTTACTAAGTAAAAAAACTAAGAAAATCATTTTCTTACTTTTCAACAATTTCATTTT
**
8842102 TAGAAAAGATAAAATGAGAAACTATGAAAATCGTTTTCTCATTATGTTTTTTTTTTTGAAATAAC
66 TAGAAAAGATAAAATGAGAAACTATGAAAATCGTTTTCTCATTA------TTTTTTCAAAATAAC
8842167 ATGTTGATTGGGTAACATGCCCCAATCTCAAGATAA
125 ATGTTGATTGGGTAACATGCCCCAATCTCAAGATAA
8842203 TGCTCATTTT
Statistics
Matches: 149, Mismatches: 8, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
164 44 0.30
165 40 0.27
166 17 0.11
171 48 0.32
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (167 bp):
GGAAATAGTTTACTAAGTAAAAAAACTAAGAAAATCATTTTCTTACTTTTCAACAATTTCATTTT
TAGAAAAGATAAAATGAGAAACTATGAAAATCGTTTTCTCATTATTTTTTCAAAATAACATGTTG
ATTGGGTAACATGCCCCAATCTCAAGATAAGGTTGTT
Found at i:8842744 original size:22 final size:22
Alignment explanation
Indices: 8842719--8842770 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
8842709 AAAGCTTTCT
8842719 TCTTTGAAAAGAGAATCTATCA
1 TCTTTGAAAAGAGAATCTATCA
*
8842741 TCTTTAAAAAGAGAATCTATCA
1 TCTTTGAAAAGAGAATCTATCA
8842763 TCTTTGAA
1 TCTTTGAA
8842771 GAGTGTAGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (22 bp):
TCTTTGAAAAGAGAATCTATCA
Found at i:8843210 original size:54 final size:54
Alignment explanation
Indices: 8843126--8843277 Score: 225
Period size: 54 Copynumber: 2.8 Consensus size: 54
8843116 TAGCAGGTTC
* * *
8843126 GTAAAACATTTGACAGTGCATTC-ATCCTTTCCTGTGGCTTCTGCTCAGATGTTA
1 GTAAAACATTTGACAATACATTCAAT-CTTTCCTGTGGTTTCTGCTCAGATGTTA
* * * *
8843180 GTAAAACATTTGACAACACATTCAATCTTTCCTGTGGTTTCTGTTTAGATGTTC
1 GTAAAACATTTGACAATACATTCAATCTTTCCTGTGGTTTCTGCTCAGATGTTA
8843234 GTAAAACATTTGACAATACATTCAATCTTTCCTGTGGTTTCTGC
1 GTAAAACATTTGACAATACATTCAATCTTTCCTGTGGTTTCTGC
8843278 CAAGATTTCT
Statistics
Matches: 88, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
54 86 0.98
55 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (54 bp):
GTAAAACATTTGACAATACATTCAATCTTTCCTGTGGTTTCTGCTCAGATGTTA
Found at i:8845459 original size:115 final size:115
Alignment explanation
Indices: 8845291--8845632 Score: 560
Period size: 115 Copynumber: 3.0 Consensus size: 115
8845281 GATCCTGCAG
* * * * * * * *
8845291 TTCATCTTTCAATTTCAATGATCGG-TTCTGGGGTTCCTACCGAATCAGATCAGATAACTCAAAA
1 TTCATCTTTCAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
* *
8845355 AACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
66 AACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCAAA
*
8845405 TTTATCTTTCAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
8845470 AACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCAAA
66 AACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCAAA
* *
8845520 TTCATCTTTCAAATCCAATGATTAGTTTTTGGGGTTTATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
8845585 AACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCA
66 AACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCA
8845633 CATGGCACTT
Statistics
Matches: 213, Mismatches: 14, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
114 21 0.10
115 192 0.90
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (115 bp):
TTCATCTTTCAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
AACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCAAA
Found at i:8849695 original size:7 final size:7
Alignment explanation
Indices: 8849680--8849720 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
8849670 TAAAAGTATG
8849680 AATGCAA
1 AATGCAA
*
8849687 AATGGAA
1 AATGCAA
8849694 AATGCAA
1 AATGCAA
8849701 AGATGCAA
1 A-ATGCAA
8849709 AATG-AA
1 AATGCAA
8849715 AATGCA
1 AATGCA
8849721 TGTATGAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 6 0.20
7 17 0.57
8 7 0.23
ACGTcount: A:0.56, C:0.10, G:0.20, T:0.15
Consensus pattern (7 bp):
AATGCAA
Found at i:8854152 original size:2 final size:2
Alignment explanation
Indices: 8854145--8854174 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
8854135 TGGGCTTGTA
8854145 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8854175 TTTAATAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8855478 original size:54 final size:54
Alignment explanation
Indices: 8855404--8855964 Score: 644
Period size: 54 Copynumber: 10.4 Consensus size: 54
8855394 ATTATCGGTG
* * * **
8855404 CTAAGTGTGCAACCCATAGAATTCATAATGTGTTTATGAATGACTATATCGACA
1 CTAAGTGTGCAACCCACAGAATTCATAATATGTTTATGAACGACCGTATCGACA
* * * * **
8855458 ATAAATGTGTAACCCATAGAATTCATAATATGTTTATGAACGACCGTATCGGTA
1 CTAAGTGTGCAACCCACAGAATTCATAATATGTTTATGAACGACCGTATCGACA
** * * *
8855512 CTAAGTGTGCAACCCATGGAATTCATAACATGTTCATGAACGATCGTATCGACA
1 CTAAGTGTGCAACCCACAGAATTCATAATATGTTTATGAACGACCGTATCGACA
* * * *
8855566 CTAAGTGTGCAACCTAC-GAAATTAATAATATGTTTATGAACGACCATATTGACA
1 CTAAGTGTGCAACCCACAG-AATTCATAATATGTTTATGAACGACCGTATCGACA
* * *
8855620 CTAAGTGTTG-AACCCA-TGAAATTCATAAAATGTTTATGAATGACCGTATC-AGCA
1 CTAAGTG-TGCAACCCACAG-AATTCATAATATGTTTATGAACGACCGTATCGA-CA
* * * * *
8855674 ATAAGTGTGCAACCCACATACTTCATAATATGTTTATGAACGACCTTATCGGCA
1 CTAAGTGTGCAACCCACAGAATTCATAATATGTTTATGAACGACCGTATCGACA
* *
8855728 CTAAGTGTGCAACCCACAAAATTCATAATATGTTTATGAACGAACGTATCGACA
1 CTAAGTGTGCAACCCACAGAATTCATAATATGTTTATGAACGACCGTATCGACA
* * * * * *
8855782 CTAAGTGTGCAACCCACGGAATTCGTAATATGTTTAAGAATGAACGTATCAACA
1 CTAAGTGTGCAACCCACAGAATTCATAATATGTTTATGAACGACCGTATCGACA
* * *
8855836 CTAAGTGTGCAACCCACATAATTCGTAATATGTTTATGAATGACCGTATCGACA
1 CTAAGTGTGCAACCCACAGAATTCATAATATGTTTATGAACGACCGTATCGACA
* * * *
8855890 CTAAGTGTGGAACCCACGGAATTCATAATATGTTTATGAACGACCGTATCGGCT
1 CTAAGTGTGCAACCCACAGAATTCATAATATGTTTATGAACGACCGTATCGACA
* * *
8855944 CTACGTGTGCACCCCAAAGAA
1 CTAAGTGTGCAACCCACAGAA
8855965 CATATAATGA
Statistics
Matches: 431, Mismatches: 69, Indels: 14
0.84 0.13 0.03
Matches are distributed among these distances:
53 4 0.01
54 425 0.99
55 2 0.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.28
Consensus pattern (54 bp):
CTAAGTGTGCAACCCACAGAATTCATAATATGTTTATGAACGACCGTATCGACA
Found at i:8859669 original size:63 final size:63
Alignment explanation
Indices: 8859570--8859707 Score: 240
Period size: 63 Copynumber: 2.2 Consensus size: 63
8859560 CCAGAGTAGA
*
8859570 GTATCGATACTCCCAGTAGGAGTTCGACACTAAGGTAATTTCAAAACATCAAACTTAATTTTG
1 GTATCGATACTCCCAGTAGGAGTTCGAAACTAAGGTAATTTCAAAACATCAAACTTAATTTTG
* *
8859633 GTATCGATACTCCCAGTGGGAGTTCGAAACTGAGGTAATTTCAAAACATCAAACTTAATTTTG
1 GTATCGATACTCCCAGTAGGAGTTCGAAACTAAGGTAATTTCAAAACATCAAACTTAATTTTG
*
8859696 GAATCGATACTC
1 GTATCGATACTC
8859708 TGTCTAGTAT
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 71 1.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (63 bp):
GTATCGATACTCCCAGTAGGAGTTCGAAACTAAGGTAATTTCAAAACATCAAACTTAATTTTG
Found at i:8869008 original size:21 final size:20
Alignment explanation
Indices: 8868983--8869021 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
8868973 TATCAAGGTC
8868983 TTTGTTGAAGCCATGAAATCT
1 TTTGTTGAAGCCAT-AAATCT
*
8869004 TTTGTTGAGGCCATAAAT
1 TTTGTTGAAGCCATAAAT
8869022 TCTGCAGTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.38
Consensus pattern (20 bp):
TTTGTTGAAGCCATAAATCT
Found at i:8874532 original size:21 final size:21
Alignment explanation
Indices: 8874510--8874549 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8874500 TTCACATCAT
*
8874510 TTTA-GTTATATTTAGTTGTA
1 TTTAGGTTATATTTACTTGTA
8874530 TTTAGGTTATATTTACTTGT
1 TTTAGGTTATATTTACTTGT
8874550 GGTGGATAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.23, C:0.03, G:0.15, T:0.60
Consensus pattern (21 bp):
TTTAGGTTATATTTACTTGTA
Found at i:8874544 original size:11 final size:10
Alignment explanation
Indices: 8874510--8874544 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
8874500 TTCACATCAT
8874510 TTTAGTTATA
1 TTTAGTTATA
*
8874520 TTTAGTTGTA
1 TTTAGTTATA
8874530 TTTAGGTTATA
1 TTTA-GTTATA
8874541 TTTA
1 TTTA
8874545 CTTGTGGTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.26, C:0.00, G:0.14, T:0.60
Consensus pattern (10 bp):
TTTAGTTATA
Found at i:8878808 original size:14 final size:14
Alignment explanation
Indices: 8878772--8878809 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
8878762 TTTTTTAAAT
*
8878772 TTTATGATTATTTA
1 TTTATGATTTTTTA
8878786 TTTA-GATTTTTTA
1 TTTATGATTTTTTA
*
8878799 TTTATAATTTT
1 TTTATGATTTT
8878810 GAAATTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.68
Consensus pattern (14 bp):
TTTATGATTTTTTA
Found at i:8878870 original size:45 final size:43
Alignment explanation
Indices: 8878759--8878870 Score: 115
Period size: 45 Copynumber: 2.6 Consensus size: 43
8878749 ATTAAGGAGG
8878759 TAATTTTTTAAATTTTATGATTATTTATTTAGATTTTTTATTTA
1 TAATTTTTT-AATTTTATGATTATTTATTTAGATTTTTTATTTA
** *
8878803 TAATTTTGAAATTTTAT-TTTATTTCATGTTATTG-TATTTTT-TTTA
1 TAATTTTTTAATTTTATGATTATTT-AT-TTA--GAT-TTTTTATTTA
8878848 TAATTTTTTAA-TTTATGATTATT
1 TAATTTTTTAATTTTATGATTATT
8878871 AAATTTTTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
42 6 0.11
43 10 0.18
44 15 0.27
45 19 0.34
46 6 0.11
ACGTcount: A:0.28, C:0.01, G:0.05, T:0.66
Consensus pattern (43 bp):
TAATTTTTTAATTTTATGATTATTTATTTAGATTTTTTATTTA
Found at i:8885572 original size:41 final size:41
Alignment explanation
Indices: 8885518--8886000 Score: 346
Period size: 41 Copynumber: 11.6 Consensus size: 41
8885508 GGTTCATCGA
* * *
8885518 TAGTGGCGTTTTT-TCAACAAACACCGCAAAAGAGTAGTACTT
1 TAGTGGCGTTTTTAT--ACAAACGCCGCTAAAGAATAGTACTT
* * *
8885560 TAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTAATT
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGAATAGTACTT
* * *
8885601 TAGTGGCATTTTTATACAAACGCCGCTATAGAATTGTACTT
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGAATAGTACTT
* * * * * *
8885642 TAGTGGCGTTTTTATACAAATGTCGTTATACACAT-GTACTA
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGA-ATAGTACTT
* *
8885683 TAGTGGCGTTTGTGTTTACAAACGCCGCTAAAGACTCA-TACTT
1 TAGTGGCGTTT-T-TATACAAACGCCGCTAAAGAAT-AGTACTT
* **
8885726 TAGTGGCGTTTTTATACAAACTCCGCTAAAGACGCA-TACTT
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGA-ATAGTACTT
* * * * * * * * *
8885767 TAGTGACATTTTTATTCAAACGCCGTTATACACTTGTACTA
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGAATAGTACTT
* * * * * *
8885808 TAGTGGCGTTTGTGTTTAAAAACGTCGCTAAAGACTCGTAATT
1 TAGTGGCGTTT-T-TATACAAACGCCGCTAAAGAATAGTACTT
* * *
8885851 TAGTGGCATTTTTATACAAACGCCGCTAAAGACTCGTACTT
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGAATAGTACTT
* *** ** * *
8885892 TA-TTGAAATTTTATACAAATACCGCTAAAGACTCGTACTT
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGAATAGTACTT
* * * * * * *
8885932 TAGTGACGTTTTTATTCAAACGCCGCTATACACTTGTACTA
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGAATAGTACTT
*
8885973 TAGTGGCGTTTGTGTTTACAAACGCCGC
1 TAGTGGCGTTT-T-TATACAAACGCCGC
8886001 AAGTGTACAA
Statistics
Matches: 352, Mismatches: 76, Indels: 25
0.78 0.17 0.06
Matches are distributed among these distances:
40 35 0.10
41 225 0.64
42 21 0.06
43 71 0.20
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (41 bp):
TAGTGGCGTTTTTATACAAACGCCGCTAAAGAATAGTACTT
Found at i:8885738 original size:166 final size:166
Alignment explanation
Indices: 8885517--8885996 Score: 574
Period size: 166 Copynumber: 2.9 Consensus size: 166
8885507 AGGTTCATCG
* * * *
8885517 ATAGTGGCGTTTTTTCAACAAACACCGCAAAAGAGT-AGTACTTTAGTGGCGTTTTTATACAAAC
1 ATAGTGGCGTTTTTT-TACAAACGCCGCTAAAGACTCA-TACTTTAGTGGCGTTTTTATACAAAC
* * * * * * *
8885581 GCCGCTAAAGACTCGTAATTTAGTGGCATTTTTATACAAACGCCGCTATAGAATTGTACTTTAGT
64 ACCGCTAAAGACTCGTACTTTAGTGACATTTTTATTCAAACGCCGCTATACACTTGTACTATAGT
* * * * *
8885646 GGCGTTT-T-TATACAAATGTCGTTATACACAT-GTACT
129 GGCGTTTGTGTATAAAAACGTCGCTAAACAC-TCGTAAT
8885682 ATAGTGGCGTTTGTGTTTACAAACGCCGCTAAAGACTCATACTTTAGTGGCGTTTTTATACAAAC
1 ATAGTGGCGTTT-T-TTTACAAACGCCGCTAAAGACTCATACTTTAGTGGCGTTTTTATACAAAC
* * * *
8885747 TCCGCTAAAGACGCATACTTTAGTGACATTTTTATTCAAACGCCGTTATACACTTGTACTATAGT
64 ACCGCTAAAGACTCGTACTTTAGTGACATTTTTATTCAAACGCCGCTATACACTTGTACTATAGT
* *
8885812 GGCGTTTGTGTTTAAAAACGTCGCTAAAGACTCGTAAT
129 GGCGTTTGTGTATAAAAACGTCGCTAAACACTCGTAAT
* * * * * *** *
8885850 TTAGTGGCATTTTTATACAAACGCCGCTAAAGACTCGTACTTTA-TTGAAATTTTATACAAATAC
1 ATAGTGGCGTTTTTTTACAAACGCCGCTAAAGACTCATACTTTAGTGGCGTTTTTATACAAACAC
*
8885914 CGCTAAAGACTCGTACTTTAGTGACGTTTTTATTCAAACGCCGCTATACACTTGTACTATAGTGG
66 CGCTAAAGACTCGTACTTTAGTGACATTTTTATTCAAACGCCGCTATACACTTGTACTATAGTGG
* *
8885979 CGTTTGTGTTTACAAACG
131 CGTTTGTGTATAAAAACG
8885997 CCGCAAGTGT
Statistics
Matches: 273, Mismatches: 36, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
165 104 0.38
166 134 0.49
167 6 0.02
168 29 0.11
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (166 bp):
ATAGTGGCGTTTTTTTACAAACGCCGCTAAAGACTCATACTTTAGTGGCGTTTTTATACAAACAC
CGCTAAAGACTCGTACTTTAGTGACATTTTTATTCAAACGCCGCTATACACTTGTACTATAGTGG
CGTTTGTGTATAAAAACGTCGCTAAACACTCGTAAT
Found at i:8885739 original size:84 final size:81
Alignment explanation
Indices: 8885517--8886000 Score: 301
Period size: 84 Copynumber: 5.8 Consensus size: 81
8885507 AGGTTCATCG
* * * *
8885517 ATAGTGGCGTTTTTTCAACAAACACCGCAAAAGAGTAGTACTTTAGTGGCGTTTTTATACAAACG
1 ATAGTGGCGTTTTTT-TACAAACGCCGCTAAAGAATA-TACTTTAGTGGCGTTTTTATACAAACG
*
8885582 CCGCTAAAGACTCGTAAT
64 CCGCTAAACACTCGTAAT
* * * * * * *
8885600 TTAGTGGCATTTTTATACAAACGCCGCTATAGAATTGTACTTTAGTGGCGTTTTTATACAAATGT
1 ATAGTGGCGTTTTTTTACAAACGCCGCTAAAGAA-TATACTTTAGTGGCGTTTTTATACAAACGC
* * *
8885665 CGTTATACACAT-GTACT
65 CGCTAAACAC-TCGTAAT
*
8885682 ATAGTGGCGTTTGTGTTTACAAACGCCGCTAAAGACTCATACTTTAGTGGCGTTTTTATACAAAC
1 ATAGTGGCGTTT-T-TTTACAAACGCCGCTAAAGAAT-ATACTTTAGTGGCGTTTTTATACAAAC
* * * * *
8885747 TCCGCTAAAGACGCATACT
63 GCCGCTAAACACTCGTAAT
* * * * * * * * * * *
8885766 TTAGTGACATTTTTATT-CAAACGCCGTTATACACTTGTACTATAGTGGCGTTTGTGTTTAAAAA
1 ATAGTGGCGTTTTT-TTACAAACGCCGCTAAAGA-ATATACTTTAGTGGCGTTT-T-TATACAAA
* *
8885830 CGTCGCTAAAGACTCGTAAT
62 CGCCGCTAAACACTCGTAAT
* * * * * * *** **
8885850 TTAGTGGCATTTTTATACAAACGCCGCTAAAGACTCGTACTTTA-TTGAAATTTTATACAAATAC
1 ATAGTGGCGTTTTTTTACAAACGCCGCTAAAGAAT-ATACTTTAGTGGCGTTTTTATACAAACGC
* *
8885914 CGCTAAAGACTCGTACT
65 CGCTAAACACTCGTAAT
* * * * * * * *
8885931 TTAGTGACGTTTTTATT-CAAACGCCGCTATACACTTGTACTATAGTGGCGTTTGTGTTTACAAA
1 ATAGTGGCGTTTTT-TTACAAACGCCGCTAAAGA-ATATACTTTAGTGGCGTTT-T-TATACAAA
8885995 CGCCGC
62 CGCCGC
8886001 AAGTGTACAA
Statistics
Matches: 308, Mismatches: 76, Indels: 33
0.74 0.18 0.08
Matches are distributed among these distances:
81 55 0.18
82 97 0.31
83 28 0.09
84 128 0.42
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (81 bp):
ATAGTGGCGTTTTTTTACAAACGCCGCTAAAGAATATACTTTAGTGGCGTTTTTATACAAACGCC
GCTAAACACTCGTAAT
Found at i:8885739 original size:125 final size:125
Alignment explanation
Indices: 8885554--8885910 Score: 504
Period size: 125 Copynumber: 2.9 Consensus size: 125
8885544 CAAAAGAGTA
* *
8885554 GTACTTTAGTGGCGTTT-T-TATACAAACGCCGCTAAAGACTCGTAATTTAGTGGCATTTTTATA
1 GTACTATAGTGGCGTTTGTGTTTACAAACGCCGCTAAAGACTCGTAATTTAGTGGCATTTTTATA
* * * * * * *
8885617 CAAACGCCGCTATAGAATTGTACTTTAGTGGCGTTTTTATACAAATGTCGTTATACACAT
66 CAAACGCCGCTAAAGACTCGTACTTTAGTGACATTTTTATACAAACGCCGTTATACACAT
* * *
8885677 GTACTATAGTGGCGTTTGTGTTTACAAACGCCGCTAAAGACTCATACTTTAGTGGCGTTTTTATA
1 GTACTATAGTGGCGTTTGTGTTTACAAACGCCGCTAAAGACTCGTAATTTAGTGGCATTTTTATA
* * * * *
8885742 CAAACTCCGCTAAAGACGCATACTTTAGTGACATTTTTATTCAAACGCCGTTATACACTT
66 CAAACGCCGCTAAAGACTCGTACTTTAGTGACATTTTTATACAAACGCCGTTATACACAT
* *
8885802 GTACTATAGTGGCGTTTGTGTTTAAAAACGTCGCTAAAGACTCGTAATTTAGTGGCATTTTTATA
1 GTACTATAGTGGCGTTTGTGTTTACAAACGCCGCTAAAGACTCGTAATTTAGTGGCATTTTTATA
* *
8885867 CAAACGCCGCTAAAGACTCGTACTTTATTGA-AATTTTATACAAA
66 CAAACGCCGCTAAAGACTCGTACTTTAGTGACATTTTTATACAAA
8885911 TACCGCTAAA
Statistics
Matches: 204, Mismatches: 28, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
123 16 0.08
124 12 0.06
125 176 0.86
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.35
Consensus pattern (125 bp):
GTACTATAGTGGCGTTTGTGTTTACAAACGCCGCTAAAGACTCGTAATTTAGTGGCATTTTTATA
CAAACGCCGCTAAAGACTCGTACTTTAGTGACATTTTTATACAAACGCCGTTATACACAT
Found at i:8889091 original size:43 final size:43
Alignment explanation
Indices: 8889030--8889306 Score: 258
Period size: 43 Copynumber: 6.5 Consensus size: 43
8889020 AAGGTAATTA
* * **
8889030 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGAGTTTTT
1 GCGGCGTTTGTGTCCAAAAACGCCGCTATAGGTCTAACCTTTT
* **
8889073 GCGGCGTTTGTGTTCAAAAACGCCATTATAGGTCTAACCTTTT
1 GCGGCGTTTGTGTCCAAAAACGCCGCTATAGGTCTAACCTTTT
*
8889116 GCGGCGTTTGTGTCCAAAAACGCCGCTATAGGTTTAACCTTTT
1 GCGGCGTTTGTGTCCAAAAACGCCGCTATAGGTCTAACCTTTT
* * *** *
8889159 GCGGAGTTTGT-TCTAAAAACGCCAG-TATATACCT-TCTCTTTT
1 GCGGCGTTTGTGTCCAAAAACGCC-GCTATAGGTCTAAC-CTTTT
* * *
8889201 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTT
1 GCGGCGTTTGTGTCCAAAAACGCCGCTATAGGTCTAACCTTTT
* * * * ** *
8889244 GTGGCGTTT-TTTCTAGAAACGCCGCTATATATCATAACTTTTT
1 GCGGCGTTTGTGTCCAAAAACGCCGCTATAGGTC-TAACCTTTT
* *
8889287 GCGGCATTTGT-TCAAAAAAC
1 GCGGCGTTTGTGTCCAAAAAC
8889307 CACGTAATAG
Statistics
Matches: 193, Mismatches: 34, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
41 1 0.01
42 52 0.27
43 138 0.72
44 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (43 bp):
GCGGCGTTTGTGTCCAAAAACGCCGCTATAGGTCTAACCTTTT
Found at i:8889221 original size:85 final size:85
Alignment explanation
Indices: 8889030--8889306 Score: 310
Period size: 85 Copynumber: 3.2 Consensus size: 85
8889020 AAGGTAATTA
**
8889030 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGAGTTTTTGCGGCGTTTGTGT-TCAAAAAC
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTTGT-TCT-AAAAAC
* ***
8889094 GCCATTATAGGTCTAACCTTTT
64 GCCAGTATATACCTAACCTTTT
* * * *
8889116 GCGGCGTTTGTGTCCAAAAACGCCGCTATAGGTTTAACCTTTTGCGGAGTTTGTTCTAAAAACGC
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTTGTTCTAAAAACGC
*
8889181 CAGTATATACCT-TCTCTTTT
66 CAGTATATACCTAAC-CTTTT
* * * *
8889201 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTGTGGCGTTTTTTCTAGAAACGC
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTTGTTCTAAAAACGC
* *
8889266 C-GCTATATATCATAACTTTTT
66 CAG-TATATA-CCTAACCTTTT
* *
8889287 GCGGCATTTGT-TCAAAAAAC
1 GCGGCGTTTGTATCCAAAAAC
8889307 CACGTAATAG
Statistics
Matches: 162, Mismatches: 24, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
84 2 0.01
85 94 0.58
86 65 0.40
87 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (85 bp):
GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTTGTTCTAAAAACGC
CAGTATATACCTAACCTTTT
Found at i:8889287 original size:128 final size:128
Alignment explanation
Indices: 8889069--8889306 Score: 309
Period size: 128 Copynumber: 1.9 Consensus size: 128
8889059 AGGTCTGAGT
* * * *
8889069 TTTTGCGGCGTTTGTGTTCAAAAACGCCATTATAGGTCTAACCTTTTGCGGCGTTTGTGTCCAAA
1 TTTTGCGGCGTTTGTATCCAAAAACGCCACTATAGATCTAACCTTTTGCGGCGTTTGTGTCCAAA
* * *
8889134 AACGCCGCTATAGGTTTAACCTTTTGCGG-AGTTTGTTCTAAAAACGCCAGTATATACCTTCTC
66 AACGCCGCTATAGATATAACCTTTTGCGGCA-TTTGTTCAAAAAACGCCAGTATATACCTTCTC
* * * * * *
8889197 TTTTGCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTGTGGCGTTT-TTTCTAGA
1 TTTTGCGGCGTTTGTATCCAAAAACGCCACTATAGATCTAACCTTTTGCGGCGTTTGTGTCCAAA
* *
8889261 AACGCCGCTATATATCATAACTTTTTGCGGCATTTGTTCAAAAAAC
66 AACGCCGCTATAGAT-ATAACCTTTTGCGGCATTTGTTCAAAAAAC
8889307 CACGTAATAG
Statistics
Matches: 93, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
127 18 0.19
128 74 0.80
129 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (128 bp):
TTTTGCGGCGTTTGTATCCAAAAACGCCACTATAGATCTAACCTTTTGCGGCGTTTGTGTCCAAA
AACGCCGCTATAGATATAACCTTTTGCGGCATTTGTTCAAAAAACGCCAGTATATACCTTCTC
Found at i:8894609 original size:29 final size:30
Alignment explanation
Indices: 8894577--8894654 Score: 90
Period size: 29 Copynumber: 2.7 Consensus size: 30
8894567 GGATAAATTT
*
8894577 TTTTATTAATTATAATAAAGTACAAAA-TA
1 TTTTATTAATTACAATAAAGTACAAAACTA
* *
8894606 TTTTGTATAA-TACAATAAAGTATAAAACTA
1 TTTTAT-TAATTACAATAAAGTACAAAACTA
*
8894636 -TTTATAAATTACAATAAAG
1 TTTTATTAATTACAATAAAG
8894655 GCGTATCATT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
28 2 0.05
29 34 0.83
30 5 0.12
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.38
Consensus pattern (30 bp):
TTTTATTAATTACAATAAAGTACAAAACTA
Found at i:8896960 original size:15 final size:16
Alignment explanation
Indices: 8896940--8896972 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
8896930 AGAAAAATTC
8896940 AATTTAA-ATTAAAAT
1 AATTTAATATTAAAAT
*
8896955 AATTTAATTTTAAAAT
1 AATTTAATATTAAAAT
8896971 AA
1 AA
8896973 CGTTAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AATTTAATATTAAAAT
Found at i:8903376 original size:59 final size:59
Alignment explanation
Indices: 8903284--8903396 Score: 190
Period size: 59 Copynumber: 1.9 Consensus size: 59
8903274 AATAGATGGA
* * *
8903284 TAAGTGTCCTATCGAACCCTCCTAGTCGTAATGAAAAGGTAAACTCAATAATATGGCTC
1 TAAGTGTCCTATCAAACCCTCCTAGTCGCAATGAAAAGGAAAACTCAATAATATGGCTC
*
8903343 TAAGTGTCCTATCAAACCCTCCTAGTCGCAATGAAAAGGAAAACTCGATAATAT
1 TAAGTGTCCTATCAAACCCTCCTAGTCGCAATGAAAAGGAAAACTCAATAATAT
8903397 AACTCTAACC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 50 1.00
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (59 bp):
TAAGTGTCCTATCAAACCCTCCTAGTCGCAATGAAAAGGAAAACTCAATAATATGGCTC
Found at i:8912019 original size:28 final size:28
Alignment explanation
Indices: 8911964--8912020 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
8911954 ATAGAATATA
* *
8911964 GTGGTCCTACGGGATATATGTGTTCTAC
1 GTGGTCCTACGGGACATATGTGTCCTAC
8911992 GTGGTCCTACGGGACATA-GTGGTCCTAC
1 GTGGTCCTACGGGACATATGT-GTCCTAC
8912020 G
1 G
8912021 GGACAATTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 2 0.08
28 24 0.92
ACGTcount: A:0.18, C:0.21, G:0.32, T:0.30
Consensus pattern (28 bp):
GTGGTCCTACGGGACATATGTGTCCTAC
Found at i:8916340 original size:33 final size:33
Alignment explanation
Indices: 8916297--8916369 Score: 112
Period size: 33 Copynumber: 2.2 Consensus size: 33
8916287 TTAGAACTTC
8916297 GCTAGCAGCAAT-GAAGAGCAAAATTATCTAGCA
1 GCTAGCAGCAATGGAA-AGCAAAATTATCTAGCA
*
8916330 GCTAGTAGCAATGGAAAGCAAAATTATCTAGCA
1 GCTAGCAGCAATGGAAAGCAAAATTATCTAGCA
*
8916363 GCAAGCA
1 GCTAGCA
8916370 TACGATGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
33 33 0.92
34 3 0.08
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (33 bp):
GCTAGCAGCAATGGAAAGCAAAATTATCTAGCA
Found at i:8921048 original size:16 final size:16
Alignment explanation
Indices: 8921029--8921079 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
8921019 CTCCACTGTT
8921029 AAACTATTC-CATTGTC
1 AAACTATTCACA-TGTC
8921045 AAACTATTCACATGTC
1 AAACTATTCACATGTC
8921061 AAACTATTCACATGTC
1 AAACTATTCACATGTC
8921077 AAA
1 AAA
8921080 TTGGGCTTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
16 32 0.94
17 2 0.06
ACGTcount: A:0.39, C:0.24, G:0.06, T:0.31
Consensus pattern (16 bp):
AAACTATTCACATGTC
Found at i:8925578 original size:18 final size:18
Alignment explanation
Indices: 8925545--8925579 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8925535 ATAAAAAAAA
* *
8925545 TTGTTTTTTATTTAATTG
1 TTGTTTTTGATATAATTG
8925563 TTGTTTTTGATATAATT
1 TTGTTTTTGATATAATT
8925580 ATATTATTTT
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:0.20, C:0.00, G:0.11, T:0.69
Consensus pattern (18 bp):
TTGTTTTTGATATAATTG
Found at i:8929934 original size:20 final size:19
Alignment explanation
Indices: 8929909--8929964 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 19
8929899 AAATTCAATT
*
8929909 AGTGTACCGATACACCTATG
1 AGTGTACCGATACACCTA-C
8929929 AGTGTACCGATACAACCTAC
1 AGTGTACCGATAC-ACCTAC
8929949 AGTGTATCC-ATACACC
1 AGTGTA-CCGATACACC
8929965 CTGGCTACAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
19 3 0.09
20 23 0.70
21 7 0.21
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (19 bp):
AGTGTACCGATACACCTAC
Found at i:8931461 original size:29 final size:29
Alignment explanation
Indices: 8931428--8931490 Score: 108
Period size: 29 Copynumber: 2.2 Consensus size: 29
8931418 ACAAGAAGAT
8931428 GAGATGGCCAAACTCTTAAAAGAGTTAAA
1 GAGATGGCCAAACTCTTAAAAGAGTTAAA
* *
8931457 GAGATGGTCAAGCTCTTAAAAGAGTTAAA
1 GAGATGGCCAAACTCTTAAAAGAGTTAAA
8931486 GAGAT
1 GAGAT
8931491 TCATGACTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.43, C:0.11, G:0.24, T:0.22
Consensus pattern (29 bp):
GAGATGGCCAAACTCTTAAAAGAGTTAAA
Found at i:8933043 original size:18 final size:18
Alignment explanation
Indices: 8933012--8933069 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 18
8933002 CAACAATTGG
8933012 TAACAATTTG-TATCTTTT
1 TAACAA-TTGATATCTTTT
*
8933030 TAATAATTGATATCCTTTTGT
1 TAACAATTGATAT-C-TTT-T
8933051 TAACAATTGATATCTTTT
1 TAACAATTGATATCTTTT
8933069 T
1 T
8933070 CATTAAACAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
17 3 0.09
18 10 0.29
19 4 0.12
20 4 0.12
21 13 0.38
ACGTcount: A:0.29, C:0.10, G:0.07, T:0.53
Consensus pattern (18 bp):
TAACAATTGATATCTTTT
Found at i:8933324 original size:20 final size:21
Alignment explanation
Indices: 8933282--8933333 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
8933272 AAAATGCTAA
8933282 AGTGTATCGATACCCCTTATG
1 AGTGTATCGATACCCCTTATG
8933303 AGTGTATCGATACCCC-TATG
1 AGTGTATCGATACCCCTTATG
8933323 AGTGTATCGAT
1 AGTGTATCGAT
8933334 GCACTGGTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (21 bp):
AGTGTATCGATACCCCTTATG
Found at i:8935738 original size:93 final size:89
Alignment explanation
Indices: 8935582--8935760 Score: 286
Period size: 93 Copynumber: 2.0 Consensus size: 89
8935572 CCCCCCCCCC
*
8935582 TTTTCTTTATGGTTATTGTTGTTAATGATATATATTACTCCTCATTTACTTCTGTCAATACAACT
1 TTTTCTTTATGGTTATTATTGTTAATGATATATATTACTCCTCATTTACTTCTGTCAATACAACT
8935647 TGGTGAAACGGTTTGCACAAACCT
66 TGGTGAAACGGTTTGCACAAACCT
* *
8935671 TTTTCTTTCTGGTTATTATTGTTAATGATATATATTAATTACTCTTCATTTACTTCTGTCAATAC
1 TTTTCTTTATGGTTATTATTGTTAATG--ATATA-T-ATTACTCCTCATTTACTTCTGTCAATAC
*
8935736 AACTTGGTGCAACGGTTTGCACAAA
62 AACTTGGTGAAACGGTTTGCACAAA
8935761 TGGAAAATGA
Statistics
Matches: 82, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
89 25 0.30
91 5 0.06
92 1 0.01
93 51 0.62
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (89 bp):
TTTTCTTTATGGTTATTATTGTTAATGATATATATTACTCCTCATTTACTTCTGTCAATACAACT
TGGTGAAACGGTTTGCACAAACCT
Found at i:8936382 original size:29 final size:31
Alignment explanation
Indices: 8936349--8936408 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 31
8936339 CTTTTTTCAG
*
8936349 TTTAGTACCTAATGTTT-ATTTCGTT-CTAA
1 TTTAGTACCTAACGTTTCATTTCGTTACTAA
* *
8936378 TTTAGTGCCTAACGTTTCATTTTGTTACTAA
1 TTTAGTACCTAACGTTTCATTTCGTTACTAA
8936409 AAATGGGTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 15 0.58
30 7 0.27
31 4 0.15
ACGTcount: A:0.23, C:0.15, G:0.12, T:0.50
Consensus pattern (31 bp):
TTTAGTACCTAACGTTTCATTTCGTTACTAA
Found at i:8936855 original size:29 final size:30
Alignment explanation
Indices: 8936811--8936868 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
8936801 CTAAATGAGT
* *
8936811 AACGGAATGAAACATTAGGCACCAAACTGG
1 AACGAAATGAAACATTAGGCACAAAACTGG
*
8936841 AACGAAAT-AAACATTCGGCACAAAACTG
1 AACGAAATGAAACATTAGGCACAAAACTG
8936869 AAAAATGGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 18 0.72
30 7 0.28
ACGTcount: A:0.47, C:0.21, G:0.19, T:0.14
Consensus pattern (30 bp):
AACGAAATGAAACATTAGGCACAAAACTGG
Found at i:8937369 original size:90 final size:90
Alignment explanation
Indices: 8937216--8937395 Score: 342
Period size: 90 Copynumber: 2.0 Consensus size: 90
8937206 ATATATATAT
*
8937216 ATATCGGTTTGGTTTAGGGTTTTTGGATATCAATAGTGAATTCATGTATAGGAATAATATCTACG
1 ATATCGGTTTGGTTTAGGGTTTTTGGATATCAATAGTGAATTCATGTAAAGGAATAATATCTACG
8937281 TGTAGCACGTTGAAATAATATCTAC
66 TGTAGCACGTTGAAATAATATCTAC
*
8937306 ATATCGGTTTGGTTTAGGGTTTTTGGATATCAATAGTGAATTCCTGTAAAGGAATAATATCTACG
1 ATATCGGTTTGGTTTAGGGTTTTTGGATATCAATAGTGAATTCATGTAAAGGAATAATATCTACG
8937371 TGTAGCACGTTGAAATAATATCTAC
66 TGTAGCACGTTGAAATAATATCTAC
8937396 GTGTAGCACG
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
90 88 1.00
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.37
Consensus pattern (90 bp):
ATATCGGTTTGGTTTAGGGTTTTTGGATATCAATAGTGAATTCATGTAAAGGAATAATATCTACG
TGTAGCACGTTGAAATAATATCTAC
Found at i:8937387 original size:26 final size:26
Alignment explanation
Indices: 8937358--8937417 Score: 111
Period size: 26 Copynumber: 2.3 Consensus size: 26
8937348 CCTGTAAAGG
8937358 AATAATATCTACGTGTAGCACGTTGA
1 AATAATATCTACGTGTAGCACGTTGA
8937384 AATAATATCTACGTGTAGCACGTTGA
1 AATAATATCTACGTGTAGCACGTTGA
8937410 AATGAATA
1 AAT-AATA
8937418 AAGGCTAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 29 0.88
27 4 0.12
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.30
Consensus pattern (26 bp):
AATAATATCTACGTGTAGCACGTTGA
Found at i:8938336 original size:15 final size:16
Alignment explanation
Indices: 8938308--8938341 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
8938298 ATATTTATAA
*
8938308 AAATAATATTTAATAT
1 AAATAATATATAATAT
8938324 AAAT-ATATATAATAT
1 AAATAATATATAATAT
8938339 AAA
1 AAA
8938342 AGGAGTACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATAATATATAATAT
Found at i:8938522 original size:31 final size:31
Alignment explanation
Indices: 8938482--8938540 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
8938472 AAAAATAGCG
8938482 GAAAAGTAAAATGCTGG-AATTTAAAAGGAAT
1 GAAAAGT-AAATGCTGGAAATTTAAAAGGAAT
* *
8938513 GAAATGTAAATTCTGGAAATTTAAAAGG
1 GAAAAGTAAATGCTGGAAATTTAAAAGG
8938541 CAGAAATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 8 0.32
31 17 0.68
ACGTcount: A:0.49, C:0.03, G:0.22, T:0.25
Consensus pattern (31 bp):
GAAAAGTAAATGCTGGAAATTTAAAAGGAAT
Found at i:8938529 original size:30 final size:30
Alignment explanation
Indices: 8938490--8938554 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
8938480 CGGAAAAGTA
*
8938490 AAATGCTGG-AATTTAAAAGGAATGAAATGT
1 AAATTCTGGAAATTTAAAAGGAA-GAAATGT
* *
8938520 AAATTCTGGAAATTTAAAAGGCAGAAATTT
1 AAATTCTGGAAATTTAAAAGGAAGAAATGT
8938550 AAATT
1 AAATT
8938555 GCAAAAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 19 0.61
31 12 0.39
ACGTcount: A:0.48, C:0.05, G:0.18, T:0.29
Consensus pattern (30 bp):
AAATTCTGGAAATTTAAAAGGAAGAAATGT
Found at i:8938630 original size:30 final size:30
Alignment explanation
Indices: 8938594--8938656 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
8938584 TAATAGAAAA
* *
8938594 AAAGTGCATAAATATAAATAATATAAATGT
1 AAAGTGCACAAATATAAATAACATAAATGT
*
8938624 AAAGTGCACAAATGTAAATAACATAAATGT
1 AAAGTGCACAAATATAAATAACATAAATGT
8938654 AAA
1 AAA
8938657 TCAAATAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.57, C:0.06, G:0.11, T:0.25
Consensus pattern (30 bp):
AAAGTGCACAAATATAAATAACATAAATGT
Found at i:8938665 original size:15 final size:15
Alignment explanation
Indices: 8938600--8938657 Score: 64
Period size: 15 Copynumber: 3.9 Consensus size: 15
8938590 AAAAAAAGTG
*
8938600 CATAAATATAAATAA
1 CATAAATGTAAATAA
* *
8938615 TATAAATGTAAAGT-G
1 CATAAATGTAAA-TAA
*
8938630 CACAAATGTAAATAA
1 CATAAATGTAAATAA
8938645 CATAAATGTAAAT
1 CATAAATGTAAAT
8938658 CAAATAAAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
14 1 0.03
15 32 0.94
16 1 0.03
ACGTcount: A:0.57, C:0.07, G:0.09, T:0.28
Consensus pattern (15 bp):
CATAAATGTAAATAA
Found at i:8938753 original size:22 final size:22
Alignment explanation
Indices: 8938728--8938776 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
8938718 GAGGTTAATA
8938728 AGTTAGAAATTAATAAACTAGT
1 AGTTAGAAATTAATAAACTAGT
* * **
8938750 AGTTAGCAATTAGTAAGTTAGT
1 AGTTAGAAATTAATAAACTAGT
8938772 AGTTA
1 AGTTA
8938777 ACGGTTAGAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.43, C:0.04, G:0.18, T:0.35
Consensus pattern (22 bp):
AGTTAGAAATTAATAAACTAGT
Found at i:8939993 original size:35 final size:35
Alignment explanation
Indices: 8939937--8940064 Score: 141
Period size: 35 Copynumber: 3.6 Consensus size: 35
8939927 CCTTAGATCC
*
8939937 ATAAGAAATTACCA-TTCTGATCAATCTAAACCTAT
1 ATAAGGAATTACCAGTT-TGATCAATCTAAACCTAT
* * * **
8939972 ATAAGGAATCATCAGTTTGATCAAGCTAAACCTGCC
1 ATAAGGAATTACCAGTTTGATCAATCTAAACCT-AT
* ** *
8940008 ATAAGGAATTACCAGTTCGATCGGTCTGAACCTAT
1 ATAAGGAATTACCAGTTTGATCAATCTAAACCTAT
8940043 ATAAGGAATTACCAGTTTGATC
1 ATAAGGAATTACCAGTTTGATC
8940065 GAGCTGAACC
Statistics
Matches: 75, Mismatches: 16, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
35 47 0.63
36 28 0.37
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.29
Consensus pattern (35 bp):
ATAAGGAATTACCAGTTTGATCAATCTAAACCTAT
Found at i:8940051 original size:71 final size:71
Alignment explanation
Indices: 8939935--8940074 Score: 192
Period size: 71 Copynumber: 2.0 Consensus size: 71
8939925 CACCTTAGAT
*
8939935 CCATAAGAAATTACCATTCTGATCAATCTAAACCTATATAAGGAATCATCAGTTTGATCAAGCTA
1 CCATAAGAAATTACCATTCTGATCAATCTAAACCTATATAAGGAATCACCAGTTTGATCAAGCTA
8940000 AACCTG
66 AACCTG
* ** * * *
8940006 CCATAAGGAATTACCAGTTC-GATCGGTCTGAACCTATATAAGGAATTACCAGTTTGATCGAGCT
1 CCATAAGAAATTACCA-TTCTGATCAATCTAAACCTATATAAGGAATCACCAGTTTGATCAAGCT
*
8940070 GAACC
65 AAACC
8940075 AGAATAGACT
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
71 57 0.95
72 3 0.05
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (71 bp):
CCATAAGAAATTACCATTCTGATCAATCTAAACCTATATAAGGAATCACCAGTTTGATCAAGCTA
AACCTG
Found at i:8956734 original size:16 final size:17
Alignment explanation
Indices: 8956701--8956735 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
8956691 AAAAATAGTC
8956701 ATAATTGTTTTTTAAAA
1 ATAATTGTTTTTTAAAA
*
8956718 ATAATTGTTTTTCAAAA
1 ATAATTGTTTTTTAAAA
8956735 A
1 A
8956736 AATGGTTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.49
Consensus pattern (17 bp):
ATAATTGTTTTTTAAAA
Found at i:8958451 original size:25 final size:25
Alignment explanation
Indices: 8958422--8958479 Score: 116
Period size: 25 Copynumber: 2.3 Consensus size: 25
8958412 GATCCAATTC
8958422 TGGGGCATGGACGTTTGATAAATGA
1 TGGGGCATGGACGTTTGATAAATGA
8958447 TGGGGCATGGACGTTTGATAAATGA
1 TGGGGCATGGACGTTTGATAAATGA
8958472 TGGGGCAT
1 TGGGGCAT
8958480 TCTGATCAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.26, C:0.09, G:0.38, T:0.28
Consensus pattern (25 bp):
TGGGGCATGGACGTTTGATAAATGA
Found at i:8960851 original size:138 final size:137
Alignment explanation
Indices: 8960603--8961010 Score: 505
Period size: 138 Copynumber: 3.0 Consensus size: 137
8960593 TTGAAACAAA
*
8960603 TTATCCCTAAAGATGGTCAACCGTCCTCATCGCGTAGGAACCGTGTCATCCACTGACTCGATCTC
1 TTATCCCTAAAGATGGT-AACCGTCCTCATCGCGTAGGAACCGTGTCATCCACTGACCCGATCTC
* * *
8960668 CTCATCACGTAGGAGCAGTGTCACCCTTAGATAACCAATCGTCCTCATCACGTAGGAATCGTATT
65 CTCATCACGTAGGAGCAGTGTCACTCTTAGATAACCAATCGTCCTCATCACGTAGAAACCGTATT
*
8960733 ATATTCCT
130 ATATGCCT
* * *
8960741 TTATCCCTAAAGATGGCTAGCCGTCCTCATCGCGTTGAAACCGTGTCATCCACTGACCCGATCTC
1 TTATCCCTAAAGATGG-TAACCGTCCTCATCGCGTAGGAACCGTGTCATCCACTGACCCGATCTC
* * * *
8960806 CTCGTTACGTAGGAGCAGTGTCACTCTTAGATAACCAGTCGTCCTCATCACGTATAAACCGTATT
65 CTCATCACGTAGGAGCAGTGTCACTCTTAGATAACCAATCGTCCTCATCACGTAGAAACCGTATT
*
8960871 ATCTGCCT
130 ATATGCCT
* *** *** *
8960879 TTATCCCTAAAAATGGATATTTGTCCTCATCATATAGGAACCGTGTCATCCACTGACCAGATCTC
1 TTATCCCTAAAGATGG-TAACCGTCCTCATCGCGTAGGAACCGTGTCATCCACTGACCCGATCTC
* * * * * * *
8960944 CTCATCACGTAGGAGCCGCGTCA-TCCTTAGATAGCTAGA-CTTCCTCATCATGTAGAAACCGTG
65 CTCATCACGTAGGAGCAGTGTCACT-CTTAGATAACCA-ATCGTCCTCATCACGTAGAAACCGTA
8961007 TTAT
128 TTAT
8961011 CTCCAAATTT
Statistics
Matches: 232, Mismatches: 35, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
137 1 0.00
138 230 0.99
139 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.28
Consensus pattern (137 bp):
TTATCCCTAAAGATGGTAACCGTCCTCATCGCGTAGGAACCGTGTCATCCACTGACCCGATCTCC
TCATCACGTAGGAGCAGTGTCACTCTTAGATAACCAATCGTCCTCATCACGTAGAAACCGTATTA
TATGCCT
Found at i:8963479 original size:5 final size:5
Alignment explanation
Indices: 8963469--8963522 Score: 63
Period size: 5 Copynumber: 10.2 Consensus size: 5
8963459 GAAAATAATA
* *
8963469 ATTTT ATTTT ATTTT ATTTT ATTTT ATTATAT ATTAAT AATTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATT-T-T ATT-TT ATTTT ATTTT
8963517 ATTTT A
1 ATTTT A
8963523 CAAAAAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
5 34 0.79
6 4 0.09
7 5 0.12
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (5 bp):
ATTTT
Found at i:8966104 original size:36 final size:33
Alignment explanation
Indices: 8966037--8966105 Score: 93
Period size: 36 Copynumber: 2.0 Consensus size: 33
8966027 TATTTGACAC
8966037 AAGAATAATAATATAATTAACATTTATATATTT
1 AAGAATAATAATATAATTAACATTTATATATTT
* *
8966070 AAGAATAATTATTATAATGTATCTATTTATATATTT
1 AAGAATAA-TAATATAAT-TAAC-ATTTATATATTT
8966106 TTAAATTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
33 8 0.26
34 8 0.26
35 3 0.10
36 12 0.39
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (33 bp):
AAGAATAATAATATAATTAACATTTATATATTT
Found at i:8977898 original size:35 final size:35
Alignment explanation
Indices: 8977854--8977920 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
8977844 AATTAAGTAT
*
8977854 TTTTAGAATTTGGGGTTTAAAATGTAATTGAATTA
1 TTTTAGAATTTGGGGTTTAAAATGAAATTGAATTA
*
8977889 TTTTAGAATTTGGGGTTTAGAATGAAATTGAA
1 TTTTAGAATTTGGGGTTTAAAATGAAATTGAA
8977921 GACCGTGTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.34, C:0.00, G:0.22, T:0.43
Consensus pattern (35 bp):
TTTTAGAATTTGGGGTTTAAAATGAAATTGAATTA
Found at i:8979975 original size:30 final size:31
Alignment explanation
Indices: 8979920--8979991 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 31
8979910 GTTAACCTAT
* * *
8979920 AGTGACCACATCTTAATTAAATAAAAACGAA
1 AGTGATCATATCTTAATTAAATAAAAACAAA
*
8979951 AGTGATCATATCTTAATT-AATAAAAATAAA
1 AGTGATCATATCTTAATTAAATAAAAACAAA
*
8979981 AGTAATCATAT
1 AGTGATCATAT
8979992 ATTATTTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 20 0.56
31 16 0.44
ACGTcount: A:0.51, C:0.11, G:0.08, T:0.29
Consensus pattern (31 bp):
AGTGATCATATCTTAATTAAATAAAAACAAA
Found at i:8980503 original size:21 final size:21
Alignment explanation
Indices: 8980474--8980540 Score: 98
Period size: 21 Copynumber: 3.2 Consensus size: 21
8980464 ATTCTGACTA
* * *
8980474 TCGCATTGCGATTTCCCAAAT
1 TCGCGTTGCGATTTTCCTAAT
8980495 TCGCGTTGCGATTTTCCTAAT
1 TCGCGTTGCGATTTTCCTAAT
*
8980516 TCGCGTTGCAATTTTCCTAAT
1 TCGCGTTGCGATTTTCCTAAT
8980537 TCGC
1 TCGC
8980541 AACGCGAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.18, C:0.27, G:0.16, T:0.39
Consensus pattern (21 bp):
TCGCGTTGCGATTTTCCTAAT
Found at i:8981515 original size:24 final size:24
Alignment explanation
Indices: 8981450--8981517 Score: 91
Period size: 24 Copynumber: 2.8 Consensus size: 24
8981440 GTGAGTACTA
*
8981450 GTCAATATTCGAAATTTGATCTTG
1 GTCAATACTCGAAATTTGATCTTG
* *
8981474 GTCAATACCCGAACTTTGATCTTG
1 GTCAATACTCGAAATTTGATCTTG
* *
8981498 GTCAATACTCGGATTTTGAT
1 GTCAATACTCGAAATTTGAT
8981518 GATTTTTCAG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (24 bp):
GTCAATACTCGAAATTTGATCTTG
Found at i:8981727 original size:14 final size:14
Alignment explanation
Indices: 8981708--8981742 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
8981698 GAAAAAGAAG
8981708 AAGAAAAATCCCCA
1 AAGAAAAATCCCCA
* *
8981722 AAGAAAAGTCCCCG
1 AAGAAAAATCCCCA
8981736 AAGAAAA
1 AAGAAAA
8981743 TGCCACGGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.57, C:0.23, G:0.14, T:0.06
Consensus pattern (14 bp):
AAGAAAAATCCCCA
Found at i:8984003 original size:19 final size:19
Alignment explanation
Indices: 8983979--8984149 Score: 97
Period size: 19 Copynumber: 9.7 Consensus size: 19
8983969 GCAACGAGAG
8983979 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
8983998 AATCGCCA--CG---TGAA
1 AATCGCAATGCGAAATGAA
*
8984012 AATCGCAACGCGAATATGAA
1 AATCGCAATGCGAA-ATGAA
* * *
8984032 TATTGCAACGCGGAAAT-AA
1 AATCGCAATGC-GAAATGAA
*
8984051 CTATCGCAATGCGAAATGAA
1 -AATCGCAATGCGAAATGAA
*
8984071 AATCGCAAT--G--A-GAG
1 AATCGCAATGCGAAATGAA
8984085 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
**
8984104 AA-CGCAA--CG--A-GGG
1 AATCGCAATGCGAAATGAA
*
8984117 AATCGCAAAGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
8984136 AATCGCAACGCGAA
1 AATCGCAATGCGAA
8984150 TTTAGTTTCG
Statistics
Matches: 118, Mismatches: 14, Indels: 40
0.69 0.08 0.23
Matches are distributed among these distances:
13 3 0.03
14 28 0.24
15 1 0.01
16 7 0.06
17 3 0.03
18 7 0.06
19 40 0.34
20 26 0.22
21 3 0.03
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:8984092 original size:106 final size:105
Alignment explanation
Indices: 8983944--8984147 Score: 284
Period size: 106 Copynumber: 1.9 Consensus size: 105
8983934 ATCTTAATGT
* * * *
8983944 CTATCGCAACGCGAAAATTACAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCCACGT
1 CTATCGCAACGCGAAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA-CGCAACGA
* * *
8984009 GAAAATCGCAACGCGAATATGAATATTGCAACGCGGAAATAA
65 GAAAATCGCAAAGCGAA-ATGAAAATCGCAACGCGGAAATAA
* *
8984051 CTATCGCAATGCG-AAATGAAAATCGCAATGAGAGAATCGCAATGCGAAATGAAAACGCAACGAG
1 CTATCGCAACGCGAAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAACGCAACGAG
**
8984115 GGAATCGCAAAGCGAAATGAAAATCGCAACGCG
66 AAAATCGCAAAGCGAAATGAAAATCGCAACGCG
8984148 AATTTAGTTT
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
104 15 0.17
105 20 0.23
106 39 0.45
107 12 0.14
ACGTcount: A:0.43, C:0.21, G:0.23, T:0.14
Consensus pattern (105 bp):
CTATCGCAACGCGAAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAACGCAACGAG
AAAATCGCAAAGCGAAATGAAAATCGCAACGCGGAAATAA
Found at i:8984120 original size:32 final size:33
Alignment explanation
Indices: 8983946--8984145 Score: 195
Period size: 33 Copynumber: 5.8 Consensus size: 33
8983936 CTTAATGTCT
* * *
8983946 ATCGCAACGCGAAAATTACAATCGCAACGAGAGA
1 ATCGCAATGCG-AAATGAAAATCGCAACGAGAGA
* * *
8983980 ATCGCAATGCGAAATGAAAATCGCCACGTGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* * * * *
8984013 ATCGCAACGCGAATATGAATATTGCAACGCGGAAATAA
1 ATCGCAATGCGAA-ATGAAAATCGCAA--C-GAGA-GA
*
8984051 CTATCGCAATGCGAAATGAAAATCGCAATGAGAGA
1 --ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
8984086 ATCGCAATGCGAAATGAAAA-CGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
8984118 ATCGCAAAGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
8984146 CGAATTTAGT
Statistics
Matches: 137, Mismatches: 21, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
32 29 0.21
33 56 0.41
34 20 0.15
35 1 0.01
36 4 0.03
37 2 0.01
38 2 0.01
39 11 0.08
40 12 0.09
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:8984199 original size:33 final size:33
Alignment explanation
Indices: 8984155--8984267 Score: 199
Period size: 33 Copynumber: 3.4 Consensus size: 33
8984145 GCGAATTTAG
* * *
8984155 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTCTCTCGTTGCGATTTTCA
8984188 TTTCGCATTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTCTCTCGTTGCGATTTTCA
8984221 TTTCGCATTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTCTCTCGTTGCGATTTTCA
8984254 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
8984268 AGTCATTTTT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 77 1.00
ACGTcount: A:0.12, C:0.22, G:0.20, T:0.46
Consensus pattern (33 bp):
TTTCGCATTGCGATTCTCTCGTTGCGATTTTCA
Found at i:8984200 original size:19 final size:19
Alignment explanation
Indices: 8984176--8984267 Score: 96
Period size: 19 Copynumber: 5.4 Consensus size: 19
8984166 GATTTTGTCG
8984176 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
8984195 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
8984209 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
8984228 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
8984242 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
8984261 TTGCGAT
1 TTGCGAT
8984268 AGTCATTTTT
Statistics
Matches: 59, Mismatches: 4, Indels: 20
0.71 0.05 0.24
Matches are distributed among these distances:
14 12 0.20
16 14 0.24
17 14 0.24
19 19 0.32
ACGTcount: A:0.13, C:0.23, G:0.18, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:8984214 original size:14 final size:14
Alignment explanation
Indices: 8984195--8984249 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
8984185 TCATTTCGCA
8984195 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
8984209 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
8984226 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
8984242 TTGCGATT
1 TTGCGATT
8984250 TTCATTTCGC
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 14 0.41
16 7 0.21
17 7 0.21
19 6 0.18
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.45
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:8984275 original size:19 final size:17
Alignment explanation
Indices: 8984184--8984267 Score: 72
Period size: 17 Copynumber: 5.1 Consensus size: 17
8984174 CGTTGCGATT
8984184 TTCATTTCGCATTGCGA
1 TTCATTTCGCATTGCGA
*
8984201 TTC-TCTCG--TTGCGA
1 TTCATTTCGCATTGCGA
8984215 TTTTCATTTCGCATTGCGA
1 --TTCATTTCGCATTGCGA
*
8984234 TTC-TCTCG--TTGCGA
1 TTCATTTCGCATTGCGA
8984248 TTTTCATTTCGCATTGCGA
1 --TTCATTTCGCATTGCGA
8984267 T
1 T
8984268 AGTCATTTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 20
0.69 0.05 0.26
Matches are distributed among these distances:
14 12 0.23
16 14 0.26
17 15 0.28
19 12 0.23
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.45
Consensus pattern (17 bp):
TTCATTTCGCATTGCGA
Found at i:8984389 original size:14 final size:14
Alignment explanation
Indices: 8984370--8984405 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
8984360 TCACAATTAA
8984370 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
8984384 ACAAATCATCTTTT
1 ACAAATCAACTTTT
8984398 AC-AATCAA
1 ACAAATCAA
8984406 TTAAACAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 5 0.25
14 15 0.75
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:8985844 original size:42 final size:42
Alignment explanation
Indices: 8985798--8985877 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
8985788 CGATGACAGT
* *
8985798 GGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGA
1 GGCCTCTTCAACGGTAGGAGGGGACTCTCGAGGAATGATAGA
* * * *
8985840 GGCCTCTTCAACGTTAGGAGTGGACTCTTGAGGGATGA
1 GGCCTCTTCAACGGTAGGAGGGGACTCTCGAGGAATGA
8985878 CAAGCGAGTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.23, C:0.17, G:0.38, T:0.23
Consensus pattern (42 bp):
GGCCTCTTCAACGGTAGGAGGGGACTCTCGAGGAATGATAGA
Found at i:8986362 original size:94 final size:94
Alignment explanation
Indices: 8986216--8986595 Score: 647
Period size: 94 Copynumber: 4.1 Consensus size: 94
8986206 ATGGATTGCA
* * *
8986216 TTAC-TTCAACCAAAAGATAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* **
8986280 TTAGCAGAATTGGTAGCAAAAGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
8986309 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
8986374 TTAGCAGAATTGGCAGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
8986403 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
8986468 TTAGCAGAATTGGCAGCAACCGAATAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
8986497 TTAC-TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAAAGAATAAACAG
1 TTACTTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAG
* *
8986561 TTTAGCAGTATTGGCAGCAACCGAATAAAT
65 TTTAGCAGAATTGGCAGCAACCGAACAAAT
8986591 TTACT
1 TTACT
8986596 AAGCAATCTA
Statistics
Matches: 275, Mismatches: 9, Indels: 4
0.95 0.03 0.01
Matches are distributed among these distances:
93 23 0.08
94 252 0.92
ACGTcount: A:0.48, C:0.18, G:0.13, T:0.22
Consensus pattern (94 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
TTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:8988324 original size:20 final size:20
Alignment explanation
Indices: 8988301--8988356 Score: 87
Period size: 20 Copynumber: 2.8 Consensus size: 20
8988291 TGAAATGAAA
8988301 ATCGCAACGAGAGAATGACT
1 ATCGCAACGAGAGAATGACT
*
8988321 ATCGCAACGCG-GAAATGACT
1 ATCGCAACGAGAG-AATGACT
8988341 ATCGCAACGAGAGAAT
1 ATCGCAACGAGAGAAT
8988357 CGCAACGCGA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.39, C:0.21, G:0.25, T:0.14
Consensus pattern (20 bp):
ATCGCAACGAGAGAATGACT
Found at i:8988360 original size:14 final size:14
Alignment explanation
Indices: 8988341--8988396 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
8988331 GGAAATGACT
8988341 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
8988355 ATCGCAACGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
8988374 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
8988388 ATCGCAACG
1 ATCGCAACG
8988397 CGAAATTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.43, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:8988378 original size:19 final size:19
Alignment explanation
Indices: 8988292--8988451 Score: 98
Period size: 19 Copynumber: 9.1 Consensus size: 19
8988282 TCTTTTGGTT
*
8988292 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
**
8988311 GAGAATGACTATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
8988331 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
8988349 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
8988365 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
8988382 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
* *
8988398 GAAATTAAAATCGCAA--T
1 GAAATGAAAATCGCAACGC
*
8988415 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
8988431 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
8988450 GA
1 GA
8988452 TTTTGGTTTC
Statistics
Matches: 109, Mismatches: 15, Indels: 34
0.69 0.09 0.22
Matches are distributed among these distances:
14 28 0.26
15 3 0.03
16 5 0.05
17 4 0.04
18 4 0.04
19 35 0.32
20 28 0.26
21 2 0.02
ACGTcount: A:0.44, C:0.20, G:0.24, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:8988448 original size:33 final size:33
Alignment explanation
Indices: 8988292--8988446 Score: 211
Period size: 33 Copynumber: 4.5 Consensus size: 33
8988282 TCTTTTGGTT
8988292 GAAATGAAAATCGCAACGAGAGAATGACTATCGCAACGC
1 GAAATGAAAATCGCAAC--GAG-A-GA--ATCGCAACGC
**
8988331 GGAAATGACTATCGCAACGAGAGAATCGCAACGC
1 -GAAATGAAAATCGCAACGAGAGAATCGCAACGC
8988365 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
8988398 GAAATTAAAATCGCAATGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
8988431 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
8988447 TGCGATTTTG
Statistics
Matches: 108, Mismatches: 7, Indels: 7
0.89 0.06 0.06
Matches are distributed among these distances:
33 77 0.71
34 10 0.09
36 2 0.02
37 1 0.01
38 3 0.03
40 15 0.14
ACGTcount: A:0.45, C:0.20, G:0.23, T:0.12
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:8988533 original size:20 final size:19
Alignment explanation
Indices: 8988458--8988535 Score: 93
Period size: 20 Copynumber: 3.8 Consensus size: 19
8988448 GCGATTTTGG
8988458 TTTCTCGTTGCGATTTTCAT
1 TTTCT-GTTGCGATTTTCAT
**
8988478 TTCTCTCGTTGCGATAGTCAT
1 TT-TCT-GTTGCGATTTTCAT
8988499 TTTCGTGTTGCGATTTTCAT
1 TTTC-TGTTGCGATTTTCAT
8988519 TTTCATGTTGCGATTTT
1 TTTC-TGTTGCGATTTT
8988536 AAGCTTAGAA
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
20 32 0.63
21 19 0.37
ACGTcount: A:0.12, C:0.18, G:0.18, T:0.53
Consensus pattern (19 bp):
TTTCTGTTGCGATTTTCAT
Found at i:8989186 original size:40 final size:40
Alignment explanation
Indices: 8989103--8989261 Score: 194
Period size: 40 Copynumber: 4.0 Consensus size: 40
8989093 TAAAAATCGA
* *
8989103 GTTGTGATTTACGGATACGCGTTGCGATTTTACGTATTGTC
1 GTTGCGATTTACGGATACGCGTTGCGA-TTTACGTATTCTC
*
8989144 GTTGCGATTTACGGATACGCATTGCGATTTACGTATTCTC
1 GTTGCGATTTACGGATACGCGTTGCGATTTACGTATTCTC
** * * * *
8989184 GTTGCGATTTAAAGATACGCGTTGTGATTTATGTAATCGC
1 GTTGCGATTTACGGATACGCGTTGCGATTTACGTATTCTC
* *
8989224 GTTGCGATTTATGTA-ATCGCGTTGCGATTTACGTATTC
1 GTTGCGATTTACGGATA-CGCGTTGCGATTTACGTATTC
8989262 GCATTGAGAA
Statistics
Matches: 101, Mismatches: 16, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
39 1 0.01
40 75 0.74
41 25 0.25
ACGTcount: A:0.20, C:0.16, G:0.25, T:0.40
Consensus pattern (40 bp):
GTTGCGATTTACGGATACGCGTTGCGATTTACGTATTCTC
Found at i:8989263 original size:20 final size:20
Alignment explanation
Indices: 8989103--8989263 Score: 155
Period size: 20 Copynumber: 8.0 Consensus size: 20
8989093 TAAAAATCGA
* * *
8989103 GTTGTGATTTACGGATACGC
1 GTTGCGATTTACGTATTCGC
8989123 GTTGCGATTTTACGTATT-GTC
1 GTTGCGA-TTTACGTATTCG-C
* *
8989144 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGTATTCGC
* *
8989164 ATTGCGATTTACGTATTCTC
1 GTTGCGATTTACGTATTCGC
* *
8989184 GTTGCGATTTAAAG-ATACGC
1 GTTGCGATTT-ACGTATTCGC
* * *
8989204 GTTGTGATTTATGTAATCGC
1 GTTGCGATTTACGTATTCGC
* *
8989224 GTTGCGATTTATGTAATCGC
1 GTTGCGATTTACGTATTCGC
8989244 GTTGCGATTTACGTATTCGC
1 GTTGCGATTTACGTATTCGC
8989264 ATTGAGAATT
Statistics
Matches: 116, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
19 2 0.02
20 95 0.82
21 19 0.16
ACGTcount: A:0.20, C:0.16, G:0.25, T:0.39
Consensus pattern (20 bp):
GTTGCGATTTACGTATTCGC
Found at i:8989293 original size:21 final size:21
Alignment explanation
Indices: 8989260--8989312 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
8989250 ATTTACGTAT
* *
8989260 TCGCATTGAGAATTAGGAAAA
1 TCGCAATGCGAATTAGGAAAA
* *
8989281 TCGCAATGCGAATTTGGGAAA
1 TCGCAATGCGAATTAGGAAAA
8989302 TCGCAATGCGA
1 TCGCAATGCGA
8989313 TAGTTAGAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTAGGAAAA
Found at i:8992142 original size:22 final size:22
Alignment explanation
Indices: 8992114--8992170 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
8992104 GTTACATAGA
*
8992114 TCCTTCGGGATATAGACACAGG
1 TCCTTCGGGACATAGACACAGG
** *
8992136 TCCTTCGGGACATATTCATAGG
1 TCCTTCGGGACATAGACACAGG
8992158 TCCTTCGGGACAT
1 TCCTTCGGGACAT
8992171 CTTTCGCATA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.28
Consensus pattern (22 bp):
TCCTTCGGGACATAGACACAGG
Found at i:8996827 original size:9 final size:9
Alignment explanation
Indices: 8996783--8996807 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
8996773 TTTTTTTTTC
8996783 AAAAAAACA
1 AAAAAAACA
8996792 AAAAAAACA
1 AAAAAAACA
8996801 AAAAAAA
1 AAAAAAA
8996808 AGGGCAAAAA
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:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAACA
Found at i:8996833 original size:18 final size:19
Alignment explanation
Indices: 8996801--8996836 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
8996791 AAAAAAAACA
*
8996801 AAAAAAAAGGGCAAAAAAT
1 AAAAAAAAGGCCAAAAAAT
8996820 AAAAAAAA-GCCAAAAAA
1 AAAAAAAAGGCCAAAAAA
8996837 GCCAAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.78, C:0.08, G:0.11, T:0.03
Consensus pattern (19 bp):
AAAAAAAAGGCCAAAAAAT
Found at i:8996835 original size:19 final size:20
Alignment explanation
Indices: 8996783--8996836 Score: 51
Period size: 19 Copynumber: 2.8 Consensus size: 20
8996773 TTTTTTTTTC
*
8996783 AAAAAAA-CAAAAAAAACAA
1 AAAAAAAGCCAAAAAAACAA
* *
8996802 AAAAAAAGGGC-AAAAAA-TA
1 AAAAAAA-GCCAAAAAAACAA
8996821 AAAAAAAGCCAAAAAA
1 AAAAAAAGCCAAAAAA
8996837 GCCAAAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
18 2 0.07
19 20 0.71
20 6 0.21
ACGTcount: A:0.81, C:0.09, G:0.07, T:0.02
Consensus pattern (20 bp):
AAAAAAAGCCAAAAAAACAA
Found at i:9009806 original size:29 final size:30
Alignment explanation
Indices: 9009735--9009794 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
9009725 CAATTTAAGG
9009735 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTGAATTTA
9009766 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
9009795 TTCAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 12 0.41
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:9009911 original size:22 final size:22
Alignment explanation
Indices: 9009885--9009965 Score: 86
Period size: 22 Copynumber: 4.0 Consensus size: 22
9009875 TTCAAGATTG
* *
9009885 CCCAGGGGGTATAGATTCCCCC
1 CCCAGGGGGTACAGATACCCCC
9009907 CCCAGGGGGTACAGATA----C
1 CCCAGGGGGTACAGATACCCCC
9009925 CCC---GGGTACAGATACCCCC
1 CCCAGGGGGTACAGATACCCCC
*
9009944 CCCAGGGGATACAGATACCCCC
1 CCCAGGGGGTACAGATACCCCC
9009966 TGCAGGTTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
15 11 0.22
18 4 0.08
19 4 0.08
22 30 0.61
ACGTcount: A:0.23, C:0.38, G:0.26, T:0.12
Consensus pattern (22 bp):
CCCAGGGGGTACAGATACCCCC
Found at i:9009932 original size:37 final size:37
Alignment explanation
Indices: 9009891--9009964 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
9009881 ATTGCCCAGG
* * *
9009891 GGGTATAGATTCCCCCCCCAGGGGGTACAGATACCCC
1 GGGTACAGATACCCCCCCCAGGGGATACAGATACCCC
9009928 GGGTACAGATACCCCCCCCAGGGGATACAGATACCCC
1 GGGTACAGATACCCCCCCCAGGGGATACAGATACCCC
9009965 CTGCAGGTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.24, C:0.36, G:0.26, T:0.14
Consensus pattern (37 bp):
GGGTACAGATACCCCCCCCAGGGGATACAGATACCCC
Found at i:9009933 original size:15 final size:15
Alignment explanation
Indices: 9009913--9009942 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
9009903 CCCCCCCAGG
9009913 GGGTACAGATACCCC
1 GGGTACAGATACCCC
9009928 GGGTACAGATACCCC
1 GGGTACAGATACCCC
9009943 CCCCAGGGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.33, G:0.27, T:0.13
Consensus pattern (15 bp):
GGGTACAGATACCCC
Found at i:9010027 original size:22 final size:22
Alignment explanation
Indices: 9009999--9010042 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
9009989 AACAGAATGT
9009999 CCAGGGGGTACCGATTCCCCCC
1 CCAGGGGGTACCGATTCCCCCC
9010021 CCAGGGGGTACCGATTCCCCCC
1 CCAGGGGGTACCGATTCCCCCC
9010043 TGTTCAACAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.14, C:0.45, G:0.27, T:0.14
Consensus pattern (22 bp):
CCAGGGGGTACCGATTCCCCCC
Found at i:9010104 original size:21 final size:21
Alignment explanation
Indices: 9010078--9010120 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
9010068 ATTTGAATAT
*
9010078 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
9010099 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
9010120 T
1 T
9010121 CTATTCTGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:9010186 original size:20 final size:22
Alignment explanation
Indices: 9010148--9010187 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
9010138 TTTGAGTATA
9010148 AAAATCATCCCCAAACGGCTCC
1 AAAATCATCCCCAAACGGCTCC
9010170 AAAA-CATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
9010188 ATATACGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.40, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCC
Found at i:9012718 original size:29 final size:30
Alignment explanation
Indices: 9012647--9012706 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
9012637 CAATTTAAGG
9012647 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTGAATTTA
9012678 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
9012707 TTCAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 12 0.41
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:9012842 original size:36 final size:36
Alignment explanation
Indices: 9012802--9012873 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
9012792 ATTGCCCAGG
* *
9012802 GGGTATAGATTCCCCCCCAGGGGGTACAGATACCCC
1 GGGTACAGATACCCCCCCAGGGGGTACAGATACCCC
9012838 GGGTACAGATACCCCCCCAGGGGGTACAGATACCCC
1 GGGTACAGATACCCCCCCAGGGGGTACAGATACCCC
9012874 CTGCAGGTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.24, C:0.35, G:0.28, T:0.14
Consensus pattern (36 bp):
GGGTACAGATACCCCCCCAGGGGGTACAGATACCCC
Found at i:9012843 original size:15 final size:15
Alignment explanation
Indices: 9012823--9012852 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
9012813 CCCCCCCAGG
9012823 GGGTACAGATACCCC
1 GGGTACAGATACCCC
9012838 GGGTACAGATACCCC
1 GGGTACAGATACCCC
9012853 CCCAGGGGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.33, G:0.27, T:0.13
Consensus pattern (15 bp):
GGGTACAGATACCCC
Found at i:9012880 original size:22 final size:21
Alignment explanation
Indices: 9012796--9012874 Score: 98
Period size: 21 Copynumber: 4.0 Consensus size: 21
9012786 TTCAAGATTG
* *
9012796 CCCAGGGGGTATAGATTCCCC
1 CCCAGGGGGTACAGATACCCC
9012817 CCCAGGGGGTACAGATA---C
1 CCCAGGGGGTACAGATACCCC
9012835 CCC---GGGTACAGATACCCC
1 CCCAGGGGGTACAGATACCCC
9012853 CCCAGGGGGTACAGATACCCC
1 CCCAGGGGGTACAGATACCCC
9012874 C
1 C
9012875 TGCAGGTTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
15 11 0.22
18 8 0.16
21 31 0.62
ACGTcount: A:0.23, C:0.37, G:0.28, T:0.13
Consensus pattern (21 bp):
CCCAGGGGGTACAGATACCCC
Found at i:9012991 original size:21 final size:21
Alignment explanation
Indices: 9012965--9013007 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
9012955 ATTTGAATAT
*
9012965 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
9012986 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
9013007 T
1 T
9013008 CTATTCTGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:9013073 original size:20 final size:22
Alignment explanation
Indices: 9013035--9013074 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
9013025 TTTGAGTATA
9013035 AAAATCATCCCCAAACGGCTCC
1 AAAATCATCCCCAAACGGCTCC
9013057 AAAA-CATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
9013075 ATATACGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.40, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCC
Found at i:9016670 original size:49 final size:48
Alignment explanation
Indices: 9016553--9017018 Score: 601
Period size: 49 Copynumber: 9.5 Consensus size: 48
9016543 TTTTATGCCG
* *
9016553 AAATGCACCATTATACATTTAA-TTGTCATTAGTGGCACCTTTCTGCCA
1 AAATGCACCATTATGCATTTAACTTG-CATTAGTGGCACCTTTCTGCAA
** * *
9016601 AAATGCACTGTTATGCATTTAACTCGCATTAGTGGCACCTTTATGCAAA
1 AAATGCACCATTATGCATTTAACTTGCATTAGTGGCACCTTTCTGC-AA
*
9016650 AAATGCACTATTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAA
1 AAATGCACCATTATGCATTTAACTTGCATTAGTGGCACCTTTCTG-CAA
** * * *
9016699 AAATGCACCATTATGCATTTAACTTGCATTAACGACACATTTATGCCAA
1 AAATGCACCATTATGCATTTAACTTGCATTAGTGGCACCTTTCTG-CAA
* * * *
9016748 AAATGCACTATTATGCATTTAACTTGCATTAGGGGCATCTTTCTGCCA
1 AAATGCACCATTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCAA
* * *
9016796 AAATGCACTATTATGCATTTAACTTGCATTAGGGGCACCTTTCTATCAA
1 AAATGCACCATTATGCATTTAACTTGCATTAGTGGCACCTTTCT-GCAA
* *
9016845 AAATGCACCATTATGCATTTAACTTGCATTAGTGGCACATTTCTACAAAAA
1 AAATGCACCATTATGCATTTAACTTGCATTAGTGGCACCTTTCTGC---AA
*
9016896 AAATGCACCATTATGCATTTAACTTGCATTAGTGGCACCTTTATGGCAA
1 AAATGCACCATTATGCATTTAACTTGCATTAGTGGCACCTTTCT-GCAA
* *
9016945 AAATGCACCATTATGCATTTAACTTGCATTAGTGACACCTTTCTACAAA
1 AAATGCACCATTATGCATTTAACTTGCATTAGTGGCACCTTTCTGC-AA
* *
9016994 AAATGCACCGTTATGTATTTAACTT
1 AAATGCACCATTATGCATTTAACTT
9017019 TTGTTATAGA
Statistics
Matches: 371, Mismatches: 38, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
48 85 0.23
49 240 0.65
50 1 0.00
51 44 0.12
52 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.34
Consensus pattern (48 bp):
AAATGCACCATTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCAA
Found at i:9016817 original size:146 final size:146
Alignment explanation
Indices: 9016553--9017018 Score: 666
Period size: 146 Copynumber: 3.2 Consensus size: 146
9016543 TTTTATGCCG
* * *
9016553 AAATGCACCATTATACATTTAA-TTGTCATTAGTGGCACCTTTCTGCC-AAAATGCACTGTTATG
1 AAATGCACCATTATGCATTTAACTTG-CATTAGTGGCACATTTCTGCCAAAAATGCACTATTATG
*
9016616 CATTTAACTCGCATTAGTGGCACCTTTATGCAAAAAATGCACTATTATGCATTTAACTTGCATTA
65 CATTTAACTTGCATTAGTGGCACCTTTATGC-AAAAATGCACTATTATGCATTTAACTTGCATTA
*
9016681 GTGGCACCTTTCTGCCAA
129 GTGGCACCTTTCTACCAA
** * *
9016699 AAATGCACCATTATGCATTTAACTTGCATTAACGACACATTTATGCCAAAAATGCACTATTATGC
1 AAATGCACCATTATGCATTTAACTTGCATTAGTGGCACATTTCTGCCAAAAATGCACTATTATGC
* * * * *
9016764 ATTTAACTTGCATTAGGGGCATCTTTCTGCCAAAATGCACTATTATGCATTTAACTTGCATTAGG
66 ATTTAACTTGCATTAGTGGCACCTTTATGCAAAAATGCACTATTATGCATTTAACTTGCATTAGT
*
9016829 GGCACCTTTCTATCAA
131 GGCACCTTTCTACCAA
* * *
9016845 AAATGCACCATTATGCATTTAACTTGCATTAGTGGCACATTTCTACAAAAAAAATGCACCATTAT
1 AAATGCACCATTATGCATTTAACTTGCATTAGTGGCACATTTCTGC--CAAAAATGCACTATTAT
*
9016910 GCATTTAACTTGCATTAGTGGCACCTTTATGGCAAAAATGCACCATTATGCATTTAACTTGCATT
64 GCATTTAACTTGCATTAGTGGCACCTTTAT-GCAAAAATGCACTATTATGCATTTAACTTGCATT
* *
9016975 AGTGACACCTTTCTACAAA
128 AGTGGCACCTTTCTACCAA
* *
9016994 AAATGCACCGTTATGTATTTAACTT
1 AAATGCACCATTATGCATTTAACTT
9017019 TTGTTATAGA
Statistics
Matches: 282, Mismatches: 33, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
146 125 0.44
147 45 0.16
148 42 0.15
149 70 0.25
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.34
Consensus pattern (146 bp):
AAATGCACCATTATGCATTTAACTTGCATTAGTGGCACATTTCTGCCAAAAATGCACTATTATGC
ATTTAACTTGCATTAGTGGCACCTTTATGCAAAAATGCACTATTATGCATTTAACTTGCATTAGT
GGCACCTTTCTACCAA
Found at i:9016858 original size:97 final size:97
Alignment explanation
Indices: 9016553--9017018 Score: 603
Period size: 97 Copynumber: 4.8 Consensus size: 97
9016543 TTTTATGCCG
* **
9016553 AAATGCACCATTATACATTTAA-TTGTCATTAGTGGCACCTTTCTGCCAAAATGCACTGTTATGC
1 AAATGCACCATTATGCATTTAACTTG-CATTAGTGGCACCTTTCTGCCAAAATGCACCATTATGC
* *
9016617 ATTTAACTCGCATTAGTGGCACCTTTAT-GCAAA
65 ATTTAACTTGCATTAGTGGCACCTTTATATC-AA
*
9016650 AAATGCACTATTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCACCATTATGC
1 AAATGCACCATTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCC-AAAATGCACCATTATGC
** * * **
9016715 ATTTAACTTGCATTAACGACACATTTATGCCAA
65 ATTTAACTTGCATTAGTGGCACCTTTATATCAA
* * * *
9016748 AAATGCACTATTATGCATTTAACTTGCATTAGGGGCATCTTTCTGCCAAAATGCACTATTATGCA
1 AAATGCACCATTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAAATGCACCATTATGCA
* *
9016813 TTTAACTTGCATTAGGGGCACCTTTCTATCAA
66 TTTAACTTGCATTAGTGGCACCTTTATATCAA
* * *
9016845 AAATGCACCATTATGCATTTAACTTGCATTAGTGGCACATTTCTACAAAAAAAATGCACCATTAT
1 AAATGCACCATTATGCATTTAACTTGCATTAGTGGCACCTTTCTGC---CAAAATGCACCATTAT
**
9016910 GCATTTAACTTGCATTAGTGGCACCTTTATGGCAA
63 GCATTTAACTTGCATTAGTGGCACCTTTATATCAA
* * * * *
9016945 AAATGCACCATTATGCATTTAACTTGCATTAGTGACACCTTTCTACAAAAAATGCACCGTTATGT
1 AAATGCACCATTATGCATTTAACTTGCATTAGTGGCACCTTTCTGC-CAAAATGCACCATTATGC
9017010 ATTTAACTT
65 ATTTAACTT
9017019 TTGTTATAGA
Statistics
Matches: 328, Mismatches: 35, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
97 124 0.38
98 114 0.35
99 1 0.00
100 89 0.27
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.34
Consensus pattern (97 bp):
AAATGCACCATTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAAATGCACCATTATGCA
TTTAACTTGCATTAGTGGCACCTTTATATCAA
Found at i:9018324 original size:47 final size:46
Alignment explanation
Indices: 9018262--9018377 Score: 126
Period size: 47 Copynumber: 2.5 Consensus size: 46
9018252 CACCGAAGTG
* * *
9018262 CCACATAGAGA-TGTCCCAAAGGACCACGTAGAAATGTCCTGAAGAA
1 CCACATAGA-ATTGTCCCGAAGGACCACATAGAAATGTCCCGAAGAA
* * * * * *
9018308 CCGCGTAGAATTTGTCCTGAATGACCACATAGAATTGTCCCGAAGGA
1 CCACATAGAA-TTGTCCCGAAGGACCACATAGAAATGTCCCGAAGAA
9018355 CCACATAGAATTGTCCCGAAGGA
1 CCACATAGAATTGTCCCGAAGGA
9018378 AAAGACCACT
Statistics
Matches: 55, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
45 1 0.02
46 18 0.33
47 36 0.65
ACGTcount: A:0.34, C:0.24, G:0.22, T:0.19
Consensus pattern (46 bp):
CCACATAGAATTGTCCCGAAGGACCACATAGAAATGTCCCGAAGAA
Found at i:9018356 original size:23 final size:23
Alignment explanation
Indices: 9018254--9018377 Score: 126
Period size: 23 Copynumber: 5.3 Consensus size: 23
9018244 AGAATATGCA
9018254 CCGAAGTG-CCACATAGAGA-TGTC
1 CCGAAG-GACCACATAGA-ATTGTC
* * *
9018277 CCAAAGGACCACGTAGAAATGTC
1 CCGAAGGACCACATAGAATTGTC
* * * *
9018300 CTGAAGAACCGCGTAGAATTTGTC
1 CCGAAGGACCACATAGAA-TTGTC
* *
9018324 CTGAATGACCACATAGAATTGTC
1 CCGAAGGACCACATAGAATTGTC
9018347 CCGAAGGACCACATAGAATTGTC
1 CCGAAGGACCACATAGAATTGTC
9018370 CCGAAGGA
1 CCGAAGGA
9018378 AAAGACCACT
Statistics
Matches: 85, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
22 2 0.02
23 65 0.76
24 18 0.21
ACGTcount: A:0.34, C:0.24, G:0.23, T:0.19
Consensus pattern (23 bp):
CCGAAGGACCACATAGAATTGTC
Found at i:9018873 original size:2 final size:2
Alignment explanation
Indices: 9018866--9019051 Score: 372
Period size: 2 Copynumber: 93.0 Consensus size: 2
9018856 TATAGTCTTT
9018866 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
9018908 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
9018950 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
9018992 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
9019034 CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA
9019052 TATATATATA
Statistics
Matches: 184, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 184 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:9019056 original size:2 final size:2
Alignment explanation
Indices: 9019051--9019082 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
9019041 ACACACACAC
9019051 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9019083 TCATAATACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9019512 original size:20 final size:20
Alignment explanation
Indices: 9019467--9019516 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
9019457 ATTTCAATTA
*
9019467 CAGTATCGATACCGTCCTCT
1 CAGTATCGATACCGTCCCCT
**
9019487 TGGTATCGATACC-TCCACCT
1 CAGTATCGATACCGTCC-CCT
9019507 CAGTATCGAT
1 CAGTATCGAT
9019517 TCTGATTGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
19 3 0.12
20 21 0.88
ACGTcount: A:0.22, C:0.32, G:0.16, T:0.30
Consensus pattern (20 bp):
CAGTATCGATACCGTCCCCT
Found at i:9026587 original size:50 final size:49
Alignment explanation
Indices: 9026469--9026743 Score: 356
Period size: 49 Copynumber: 5.6 Consensus size: 49
9026459 TTTTATGCCG
* * *
9026469 AAATGCACCATTATACATTTAA-TTGTCATTAGTGACACCTTTCTGC-CA
1 AAATGCACCATTATGCATTTAACTTG-CATTAGTGACACCTTTCTACAAA
* * * * *
9026517 AAACGCACCATTATGTATTTAACTCGCATTAGTGGCACATTTCTACAAAA
1 AAATGCACCATTATGCATTTAACTTGCATTAGTGACACCTTTCTAC-AAA
* *
9026567 AAATGTACCATTATGCATTTAACTTGCATTAGTGGCACCTTTCTACAAA
1 AAATGCACCATTATGCATTTAACTTGCATTAGTGACACCTTTCTACAAA
* * ***
9026616 AAGTGCACCATTATGCACTTAACTTGCATTAGTGACACCTTTCTGGGAA
1 AAATGCACCATTATGCATTTAACTTGCATTAGTGACACCTTTCTACAAA
*
9026665 AAATGCACCATTATGCATTTAACTTGCATTAGTGACACCTTTCTACCAA
1 AAATGCACCATTATGCATTTAACTTGCATTAGTGACACCTTTCTACAAA
* *
9026714 AAATGCACCGTTATGCATTTAACTTTCATT
1 AAATGCACCATTATGCATTTAACTTGCATT
9026744 TTAGAGCAGT
Statistics
Matches: 197, Mismatches: 27, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
48 36 0.18
49 119 0.60
50 42 0.21
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.33
Consensus pattern (49 bp):
AAATGCACCATTATGCATTTAACTTGCATTAGTGACACCTTTCTACAAA
Found at i:9028485 original size:23 final size:24
Alignment explanation
Indices: 9028441--9028485 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
9028431 TCAATCAATC
*
9028441 CACAAATTCAAACAAATCCAAAGT
1 CACAAAATCAAACAAATCCAAAGT
9028465 CACAAAATCAAAC-AATCCAAA
1 CACAAAATCAAACAAATCCAAA
9028486 AAGTTGAAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.58, C:0.27, G:0.02, T:0.13
Consensus pattern (24 bp):
CACAAAATCAAACAAATCCAAAGT
Found at i:9029727 original size:21 final size:21
Alignment explanation
Indices: 9029703--9029742 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9029693 CAATGGGATT
*
9029703 AGGATTAGGAATTGGATTTTG
1 AGGATTAGGAAGTGGATTTTG
*
9029724 AGGATTTGGAAGTGGATTT
1 AGGATTAGGAAGTGGATTT
9029743 GGTTGACGGT
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:0.28, C:0.00, G:0.35, T:0.38
Consensus pattern (21 bp):
AGGATTAGGAAGTGGATTTTG
Found at i:9030483 original size:20 final size:21
Alignment explanation
Indices: 9030430--9030491 Score: 72
Period size: 20 Copynumber: 2.9 Consensus size: 21
9030420 CCAGAACCCC
9030430 AGGGGGAATCGGTTCCCCTTCAA
1 AGGGGGAATCGGTT-CCC-TCAA
9030453 AGGGGGAATCGGTTCCCTC-A
1 AGGGGGAATCGGTTCCCTCAA
* * *
9030473 TGGGGGGATCGATTCCCTC
1 AGGGGGAATCGGTTCCCTC
9030492 TGCACCAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 17 0.47
21 2 0.06
22 3 0.08
23 14 0.39
ACGTcount: A:0.18, C:0.26, G:0.34, T:0.23
Consensus pattern (21 bp):
AGGGGGAATCGGTTCCCTCAA
Found at i:9034343 original size:22 final size:21
Alignment explanation
Indices: 9034301--9034340 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
9034291 GAGCTTATTT
*
9034301 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
9034322 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
9034341 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:9046086 original size:172 final size:172
Alignment explanation
Indices: 9045800--9046143 Score: 688
Period size: 172 Copynumber: 2.0 Consensus size: 172
9045790 TTTGCTTTTC
9045800 AATTAATAAACAAAATTTTAATTATTCGCCAACACATTCAATTTTATATTTATGAACATATTTAT
1 AATTAATAAACAAAATTTTAATTATTCGCCAACACATTCAATTTTATATTTATGAACATATTTAT
9045865 TTAATGTTTGCGAACATGTGCCGTTTAAACGAAGGAATACAAACATAATTTTAAAATTCCTAGTG
66 TTAATGTTTGCGAACATGTGCCGTTTAAACGAAGGAATACAAACATAATTTTAAAATTCCTAGTG
9045930 AACACAAACCGAATACAAACTTAAAACTGAACAATGAACACA
131 AACACAAACCGAATACAAACTTAAAACTGAACAATGAACACA
9045972 AATTAATAAACAAAATTTTAATTATTCGCCAACACATTCAATTTTATATTTATGAACATATTTAT
1 AATTAATAAACAAAATTTTAATTATTCGCCAACACATTCAATTTTATATTTATGAACATATTTAT
9046037 TTAATGTTTGCGAACATGTGCCGTTTAAACGAAGGAATACAAACATAATTTTAAAATTCCTAGTG
66 TTAATGTTTGCGAACATGTGCCGTTTAAACGAAGGAATACAAACATAATTTTAAAATTCCTAGTG
9046102 AACACAAACCGAATACAAACTTAAAACTGAACAATGAACACA
131 AACACAAACCGAATACAAACTTAAAACTGAACAATGAACACA
9046144 GGAGGCTCAT
Statistics
Matches: 172, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
172 172 1.00
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (172 bp):
AATTAATAAACAAAATTTTAATTATTCGCCAACACATTCAATTTTATATTTATGAACATATTTAT
TTAATGTTTGCGAACATGTGCCGTTTAAACGAAGGAATACAAACATAATTTTAAAATTCCTAGTG
AACACAAACCGAATACAAACTTAAAACTGAACAATGAACACA
Found at i:9055148 original size:55 final size:55
Alignment explanation
Indices: 9055082--9055386 Score: 301
Period size: 55 Copynumber: 5.7 Consensus size: 55
9055072 CCAATGACGA
* * * * *
9055082 GTCCGTTCCCTATTCTTTCAGGGAGTATAAGACTCGAACAATCTTTAAAAAATGT
1 GTCCGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAAAAAACGT
* * * * *
9055137 GTCTGCTCCCTATTCATTCAGGGAGTATAAGACTTGAACAATCTTCAATAAAACGG
1 GTCCGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAA-AAAACGT
* * * *
9055193 GTCCGCTCTCTATTCCTTCAGAGAGTAT-AGAACTCGGAA-AATCTTCGATAAACGG
1 GTCCGCTCCCTATTCCTTCAGAGAGTATAAG-ACTC-GAACAATCTTCAAAAAACGT
* *
9055248 GTCTGCTCCCTATTCCTTCAGAGAGTAT-AGAACT----CAATCTTTAACAAAA-GT
1 GTCCGCTCCCTATTCCTTCAGAGAGTATAAG-ACTCGAACAATCTTCAA-AAAACGT
* *
9055299 GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCG----ATCTTCAACAAACGT
1 GTCCGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAAAAAACGT
* *
9055350 GTCCGCTCCCTATTCCTTTAGAGAGTATAGGACTCGA
1 GTCCGCTCCCTATTCCTTCAGAGAGTATAAGACTCGA
9055387 TCTTCATAAA
Statistics
Matches: 215, Mismatches: 25, Indels: 23
0.82 0.10 0.09
Matches are distributed among these distances:
50 3 0.01
51 82 0.38
52 4 0.02
55 83 0.39
56 40 0.19
57 3 0.01
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.30
Consensus pattern (55 bp):
GTCCGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAAAAAACGT
Found at i:9055311 original size:51 final size:51
Alignment explanation
Indices: 9055120--9055392 Score: 262
Period size: 51 Copynumber: 5.2 Consensus size: 51
9055110 AAGACTCGAA
* * * *
9055120 CAATCTTTAA-AAAATGTGTCTGCTCCCTATTCATTCAGGGAGTATA-AGACTT
1 CAATCTTCAACAAAA-GTGTCCGCTCCCTATTCCTTCAGAGAGTATAGA-AC-T
* * *
9055172 GAACAATCTTCAATAAAACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACT
1 ---CAATCTTCAACAAAA-GTGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACT
* * * * *
9055227 CGGAAAATCTTCGATAAACGGGTCTGCTCCCTATTCCTTCAGAGAGTATAGAACT
1 C----AATCTTCAACAAAAGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACT
* *
9055282 CAATCTTTAACAAAAGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACT
1 CAATCTTCAACAAAAGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACT
* * * *
9055333 CGATCTTCAACAAACGTGTCCGCTCCCTATTCCTTTAGAGAGTATAGGACT
1 CAATCTTCAACAAAAGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACT
*
9055384 CGATCTTCA
1 CAATCTTCA
9055393 TAAAATGAGT
Statistics
Matches: 190, Mismatches: 22, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
51 99 0.52
52 1 0.01
55 45 0.24
56 44 0.23
57 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (51 bp):
CAATCTTCAACAAAAGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACT
Found at i:9055377 original size:102 final size:105
Alignment explanation
Indices: 9055082--9055392 Score: 290
Period size: 111 Copynumber: 2.9 Consensus size: 105
9055072 CCAATGACGA
* * * * * * * * *
9055082 GTCCGTTCCCTATTCTTTCAGGGAGTATA-AGACTCGAACAATCTTTAAAAAATGTGTCTGCTCC
1 GTCCGCTCCCTATTCCTTCAGAGAGTATAGA-ACTCG--GAATCTTCAACAAACGGGTCCGCTCC
* * *
9055146 CTATTCATTCAGGGAGTATA-AGACTTGAACAATCTTCAATAAAACGG
63 CTATTCCTTCAGAGAGTATAGA-AC-T---CAATCTTCAACAAAACGG
* * * *
9055193 GTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGGAAAATCTTCGATAAACGGGTCTGCTCCC
1 GTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGG--AATCTTCAACAAACGGGTCCGCTCCC
* *
9055258 TATTCCTTCAGAGAGTATAGAACTCAATCTTTAACAAAA-GT
64 TATTCCTTCAGAGAGTATAGAACTCAATCTTCAACAAAACGG
* *
9055299 GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTC-G-ATCTTCAACAAACGTGTCCGCTCCCTA
1 GTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGGAATCTTCAACAAACGGGTCCGCTCCCTA
* * *
9055362 TTCCTTTAGAGAGTATAGGACTCGATCTTCA
66 TTCCTTCAGAGAGTATAGAACTCAATCTTCA
9055393 TAAAATGAGT
Statistics
Matches: 171, Mismatches: 25, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
102 50 0.29
105 1 0.01
106 34 0.20
107 13 0.08
110 1 0.01
111 70 0.41
112 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (105 bp):
GTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGGAATCTTCAACAAACGGGTCCGCTCCCTA
TTCCTTCAGAGAGTATAGAACTCAATCTTCAACAAAACGG
Found at i:9056788 original size:15 final size:14
Alignment explanation
Indices: 9056762--9056792 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
9056752 TTCCTTCCAT
9056762 TTTCCATTTTTTTG
1 TTTCCATTTTTTTG
9056776 TTTCCATTTTTTT-
1 TTTCCATTTTTTTG
9056789 TTTC
1 TTTC
9056793 TTTTTCATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.06, C:0.16, G:0.03, T:0.74
Consensus pattern (14 bp):
TTTCCATTTTTTTG
Found at i:9056829 original size:37 final size:36
Alignment explanation
Indices: 9056711--9056831 Score: 117
Period size: 37 Copynumber: 3.4 Consensus size: 36
9056701 CCTTTTATTT
**
9056711 ATTTTTCTTTT-TTCATCATCATTTTCATTTTTTTCTC
1 ATTTTTCTTTTCTTTTTCATCATTTTCA-TTTTTTC-C
* * *
9056748 ATTTTTCCTTCCATTTTC--CATTTT--TTTGTTTCC
1 ATTTTTCTTTTCTTTTTCATCATTTTCATTT-TTTCC
*
9056781 ATTTTTTTTTTCTTTTTCATCATTTCTCATTTTTTCC
1 ATTTTTCTTTTCTTTTTCATCATTT-TCATTTTTTCC
9056818 ATTTTTCTTTTCTT
1 ATTTTTCTTTTCTT
9056832 CTTTTTCTTC
Statistics
Matches: 67, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
33 18 0.27
34 4 0.06
35 5 0.07
36 7 0.10
37 27 0.40
38 6 0.09
ACGTcount: A:0.11, C:0.20, G:0.01, T:0.69
Consensus pattern (36 bp):
ATTTTTCTTTTCTTTTTCATCATTTTCATTTTTTCC
Found at i:9056836 original size:14 final size:15
Alignment explanation
Indices: 9056812--9056853 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 15
9056802 ATTTCTCATT
9056812 TTTTCCATTTTTCTT-
1 TTTT-CATTTTTCTTC
9056827 TTCTTC-TTTTTCTTC
1 TT-TTCATTTTTCTTC
9056842 TTTTCATTTTTC
1 TTTTCATTTTTC
9056854 ATTATTTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 11 0.46
15 11 0.46
16 2 0.08
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTCATTTTTCTTC
Found at i:9056853 original size:37 final size:37
Alignment explanation
Indices: 9056776--9056852 Score: 104
Period size: 38 Copynumber: 2.1 Consensus size: 37
9056766 CATTTTTTTG
9056776 TTTCCATTTTTTTTTTCTTTTTCATCATTTCTCATTT
1 TTTCCATTTTTTTTTTCTTTTTCATCATTTCTCATTT
*
9056813 TTTCCATTTTTCTTTTCTTCTTTTTCTTC-TTT-TCATTT
1 TTTCCA-TTTT-TTTT-TTCTTTTTCATCATTTCTCATTT
9056851 TT
1 TT
9056853 CATTATTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
37 6 0.17
38 12 0.33
39 7 0.19
40 11 0.31
ACGTcount: A:0.08, C:0.19, G:0.00, T:0.73
Consensus pattern (37 bp):
TTTCCATTTTTTTTTTCTTTTTCATCATTTCTCATTT
Found at i:9060157 original size:2 final size:2
Alignment explanation
Indices: 9060152--9060189 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
9060142 ATGAAAGAGA
* *
9060152 AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9060190 GGAAGGATCC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:9066441 original size:46 final size:45
Alignment explanation
Indices: 9066329--9066499 Score: 288
Period size: 45 Copynumber: 3.8 Consensus size: 45
9066319 TGTTATTCAC
*
9066329 AAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCTTGTTCGA
1 AAAATAAA-CCTAACCGCATGATATCTAATTCGCATGCTTGTTCGA
*
9066375 AAAATAAACCTAACCTCATGATATCTAATTCGCATGCTTGTTCGAA
1 AAAATAAACCTAACCGCATGATATCTAATTCGCATGCTTGTTCG-A
*
9066421 AAAATAAACCTAACCGCATGATATCTAGTTCGCATGCTTGTTCGA
1 AAAATAAACCTAACCGCATGATATCTAATTCGCATGCTTGTTCGA
*
9066466 AAAATAAACCTAACCGCATGATATCTAGTTCGCA
1 AAAATAAACCTAACCGCATGATATCTAATTCGCA
9066500 AGCATTTATT
Statistics
Matches: 120, Mismatches: 4, Indels: 3
0.94 0.03 0.02
Matches are distributed among these distances:
45 70 0.58
46 50 0.42
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.28
Consensus pattern (45 bp):
AAAATAAACCTAACCGCATGATATCTAATTCGCATGCTTGTTCGA
Found at i:9066444 original size:91 final size:92
Alignment explanation
Indices: 9066329--9066499 Score: 299
Period size: 91 Copynumber: 1.9 Consensus size: 92
9066319 TGTTATTCAC
*
9066329 AAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCTTGTTCGAAAAATAAACCTAACCTCAT
1 AAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCTTGTTCGAAAAATAAACCTAACCGCAT
9066394 GATATCTAATTCGCATGCTTGTTCGAA
66 GATATCTAATTCGCATGCTTGTTCGAA
* *
9066421 AAAATAAA-CCTAACCGCATGATATCTAGTTCGCATGCTTGTTCGAAAAATAAACCTAACCGCAT
1 AAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCTTGTTCGAAAAATAAACCTAACCGCAT
*
9066485 GATATCTAGTTCGCA
66 GATATCTAATTCGCA
9066500 AGCATTTATT
Statistics
Matches: 75, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
91 68 0.91
92 7 0.09
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.28
Consensus pattern (92 bp):
AAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCTTGTTCGAAAAATAAACCTAACCGCAT
GATATCTAATTCGCATGCTTGTTCGAA
Found at i:9066515 original size:91 final size:90
Alignment explanation
Indices: 9066321--9066515 Score: 284
Period size: 91 Copynumber: 2.1 Consensus size: 90
9066311 CCATGCTTTG
9066321 TTATTCACAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCTTGTTCGAAAAATAAACCT
1 TTATTCA-AAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCTTGTTCGAAAAATAAACCT
* *
9066386 AACCTCATGATATCTAATTCGCATGC
65 AACCGCATGATATCTAATTCGCAAGC
* * *
9066412 TTGTTCGAAAAA-ATAAACCTAACCGCATGATATCTAGTTCGCATGCTTGTTCGAAAAATAAACC
1 TTATTC-AAAAAGA-AATCCTAACCGCATGATATCTAATTCGCATGCTTGTTCGAAAAATAAACC
*
9066476 TAACCGCATGATATCTAGTTCGCAAGC
64 TAACCGCATGATATCTAATTCGCAAGC
9066503 ATTTATTCAAAAA
1 --TTATTCAAAAA
9066516 ATGAAAATAA
Statistics
Matches: 93, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
90 1 0.01
91 81 0.87
92 6 0.06
93 5 0.05
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (90 bp):
TTATTCAAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCTTGTTCGAAAAATAAACCTA
ACCGCATGATATCTAATTCGCAAGC
Found at i:9069759 original size:2 final size:2
Alignment explanation
Indices: 9069752--9069786 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
9069742 CTAAATAAGC
9069752 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
9069787 ATGTTAGGAT
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:9073836 original size:2 final size:2
Alignment explanation
Indices: 9073829--9073855 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9073819 TATCTCTTTA
9073829 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
9073856 GTGGATTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.