Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 231 of 290
Found at i:79840424 original size:28 final size:28
Alignment explanation
Indices: 79840388--79840442 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
79840378 ATTACACTGT
* *
79840388 ACTAATACTGCATTGGGCTTAGGCCCAC
1 ACTAATACTGCATAGGGCTAAGGCCCAC
* *
79840416 ACTATTACTGTATAGGGCTAAGGCCCA
1 ACTAATACTGCATAGGGCTAAGGCCCA
79840443 GACTGTACTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.25
Consensus pattern (28 bp):
ACTAATACTGCATAGGGCTAAGGCCCAC
Found at i:79843904 original size:27 final size:27
Alignment explanation
Indices: 79843874--79843987 Score: 115
Period size: 27 Copynumber: 4.2 Consensus size: 27
79843864 CGAATTACAA
*
79843874 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACTAAAATACCCTTGTAGGGTAG
* *
79843901 AATTA-TCGAAATACCCTTGTAGCGTAG
1 AATTACT-AAAATACCCTTGTAGGGTAG
* *
79843928 AAATACCAAAATACCCTTGTAGGGTAG
1 AATTACTAAAATACCCTTGTAGGGTAG
* * * *
79843955 AATTA-TCGAGATACCCTTGTGGGGTAA
1 AATTACT-AAAATACCCTTGTAGGGTAG
79843982 AATTAC
1 AATTAC
79843988 CATTTTGCCC
Statistics
Matches: 70, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
26 1 0.01
27 69 0.99
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (27 bp):
AATTACTAAAATACCCTTGTAGGGTAG
Found at i:79843916 original size:54 final size:54
Alignment explanation
Indices: 79843872--79843989 Score: 137
Period size: 54 Copynumber: 2.2 Consensus size: 54
79843862 CTCGAATTAC
* * * *
79843872 AAAATTACTAAAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTGTAGCGT
1 AAAAATACCAAAATACCCCTGTAGGGTAGAATTATCGAAATACCCTCGTAGAGT
* * * * * *
79843926 AGAAATACCAAAATACCCTTGTAGGGTAGAATTATCGAGATACCCTTGTGGGGT
1 AAAAATACCAAAATACCCCTGTAGGGTAGAATTATCGAAATACCCTCGTAGAGT
*
79843980 AAAATTACCA
1 AAAAATACCA
79843990 TTTTGCCCTT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (54 bp):
AAAAATACCAAAATACCCCTGTAGGGTAGAATTATCGAAATACCCTCGTAGAGT
Found at i:79844554 original size:22 final size:22
Alignment explanation
Indices: 79844502--79844565 Score: 85
Period size: 22 Copynumber: 2.9 Consensus size: 22
79844492 GCCAATTATT
*
79844502 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTTTGTGCCAAC
*
79844524 CT-ACATATGGCTTTGTGCCAAC
1 CTGA-TTATGGCTTTGTGCCAAC
*
79844546 CTGATTATGGCTATGTGCCA
1 CTGATTATGGCTTTGTGCCA
79844566 TTATTGTGGG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.33
Consensus pattern (22 bp):
CTGATTATGGCTTTGTGCCAAC
Found at i:79844607 original size:20 final size:20
Alignment explanation
Indices: 79844567--79844607 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
79844557 TATGTGCCAT
* *
79844567 TATTGTGGGCTTCGTATCGA
1 TATTGTGGGCATCGTACCGA
*
79844587 TATTGTGGGCATCGTGCCGA
1 TATTGTGGGCATCGTACCGA
79844607 T
1 T
79844608 TATAGACCCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.17, G:0.32, T:0.37
Consensus pattern (20 bp):
TATTGTGGGCATCGTACCGA
Found at i:79844854 original size:25 final size:25
Alignment explanation
Indices: 79844826--79844889 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 25
79844816 CATTCACATT
* * *
79844826 CTGATTTTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTCACCTAATA
*
79844851 CTGATTCTGATTCTGTCACCTAATT
1 CTGATTCTGATTCTGTCACCTAATA
79844876 CTGATTCTGATTCT
1 CTGATTCTGATTCT
79844890 CATTTTGATT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.19, C:0.20, G:0.14, T:0.47
Consensus pattern (25 bp):
CTGATTCTGATTCTGTCACCTAATA
Found at i:79844862 original size:6 final size:6
Alignment explanation
Indices: 79844823--79844910 Score: 56
Period size: 6 Copynumber: 14.3 Consensus size: 6
79844813 TTGCATTCAC
* * * *
79844823 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* *
79844873 ATTCTG ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
79844911 AATGTTTGTT
Statistics
Matches: 62, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
5 4 0.06
6 50 0.81
7 6 0.10
8 2 0.03
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:79846640 original size:109 final size:109
Alignment explanation
Indices: 79846497--79846818 Score: 608
Period size: 109 Copynumber: 3.0 Consensus size: 109
79846487 TGTCATCTTG
* * * *
79846497 ATTAAATCATATTTTGAAATCGTGCATTTGAGATTTATTTATTCAGTTTACTTAGTTTAAAATCT
1 ATTAAATCATATTTTGAAATCATACATTTGAGATTTATTTATTTAGTTTACTTGGTTTAAAATCT
79846562 TAGTTTTTAATCACCCTCTTCAAACAAAATATTTTTCTTTATTT
66 TAGTTTTTAATCACCCTCTTCAAACAAAATATTTTTCTTTATTT
79846606 ATTAAATCATATTTTGAAATCATACATTTGAGATTTATTTATTTAGTTTACTTGGTTTAAAATCT
1 ATTAAATCATATTTTGAAATCATACATTTGAGATTTATTTATTTAGTTTACTTGGTTTAAAATCT
79846671 TAGTTTTTAATCACCCTCTTCAAACAAAATATTTTTCTTTATTT
66 TAGTTTTTAATCACCCTCTTCAAACAAAATATTTTTCTTTATTT
79846715 ATTAAATCATATTTTGAAATCATACATTTGAGATTTATTTATTTAGTTTACTTGGTTTAAAATCT
1 ATTAAATCATATTTTGAAATCATACATTTGAGATTTATTTATTTAGTTTACTTGGTTTAAAATCT
79846780 TAGTTTTTAATCACCCTCTTCAAACAAAATATTTTTCTT
66 TAGTTTTTAATCACCCTCTTCAAACAAAATATTTTTCTT
79846819 CACCAAAGTG
Statistics
Matches: 209, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
109 209 1.00
ACGTcount: A:0.32, C:0.12, G:0.07, T:0.49
Consensus pattern (109 bp):
ATTAAATCATATTTTGAAATCATACATTTGAGATTTATTTATTTAGTTTACTTGGTTTAAAATCT
TAGTTTTTAATCACCCTCTTCAAACAAAATATTTTTCTTTATTT
Found at i:79849725 original size:28 final size:29
Alignment explanation
Indices: 79849693--79849749 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
79849683 TACTTTTAAA
* *
79849693 TAACAACTAATATCTCAA-ATTCATCAAT
1 TAACAACTAAAATCACAAGATTCATCAAT
* *
79849721 TAACATCTAAAATCACAAGGTTCATCAAT
1 TAACAACTAAAATCACAAGATTCATCAAT
79849750 GGAAACATTC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 15 0.62
29 9 0.38
ACGTcount: A:0.46, C:0.21, G:0.04, T:0.30
Consensus pattern (29 bp):
TAACAACTAAAATCACAAGATTCATCAAT
Found at i:79850010 original size:21 final size:21
Alignment explanation
Indices: 79849981--79850027 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
79849971 CCCAGAAACA
*
79849981 ATTTATGAACTTACTCGTAAG
1 ATTTGTGAACTTACTCGTAAG
79850002 ATTTGTGAACTTACTCGTAAG
1 ATTTGTGAACTTACTCGTAAG
79850023 ATTTG
1 ATTTG
79850028 GTGGCCCAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (21 bp):
ATTTGTGAACTTACTCGTAAG
Found at i:79853615 original size:44 final size:42
Alignment explanation
Indices: 79853479--79853634 Score: 159
Period size: 43 Copynumber: 3.6 Consensus size: 42
79853469 AATGGCAACA
* * * * * *
79853479 TCCCAAACATGGTCTTACATGTAATCAAATATTGATGCCACTG
1 TCCCAGACATGGTCTTACACGAAATCAAAGA-CGATGCCAATG
* * * * * **
79853522 TCCCAAATAGGGTCTTACACGAAATCAAATACGATACTGATG
1 TCCCAGACATGGTCTTACACGAAATCAAAGACGATGCCAATG
*
79853564 TCCCAGACATGGTCTTACACGTAAATCATAAGCCGATGCCAATG
1 TCCCAGACATGGTCTTACACG-AAATCA-AAGACGATGCCAATG
79853608 TCCCAGACATGGTCTTACACGAAATCA
1 TCCCAGACATGGTCTTACACGAAATCA
79853635 CATATCAGAA
Statistics
Matches: 94, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
42 24 0.26
43 39 0.41
44 31 0.33
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACGAAATCAAAGACGATGCCAATG
Found at i:79864446 original size:47 final size:47
Alignment explanation
Indices: 79864395--79864713 Score: 548
Period size: 47 Copynumber: 6.7 Consensus size: 47
79864385 TATACACTTC
*
79864395 CACATCCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
79864442 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
79864489 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
79864536 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
79864583 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
* * * *
79864630 CACATTCATCACATTGGCCATTCGGCCTTATCACGCATATATATACTTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACAT--GTT
* * *
79864679 CACATTCATCACATTGGCCACTAGGCCCTATCACA
1 CACATTCATCACATTGGCCATTCGGCCTTATCACA
79864714 TATATATACT
Statistics
Matches: 261, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
47 228 0.87
49 33 0.13
ACGTcount: A:0.28, C:0.32, G:0.11, T:0.29
Consensus pattern (47 bp):
CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
Found at i:79870721 original size:49 final size:49
Alignment explanation
Indices: 79870615--79870841 Score: 214
Period size: 49 Copynumber: 4.7 Consensus size: 49
79870605 CAGGATATTT
* * **
79870615 AAGCCTGTGTAAGACATGTCTAGGACAT-GCATCGGTA---TTGAGACGA
1 AAGCCAGTGTAAGACATGTCTGGGACATGGCATCGACACCGTT-AGACGA
** *
79870661 AAGTTAGTGTAAGACATGTTTGGGACATGGCATCGACACC-TTGAGACGA
1 AAGCCAGTGTAAGACATGTCTGGGACATGGCATCGACACCGTT-AGACGA
* * *
79870710 AAGCTAGTGTAAGACATGTCTGGGACATGGCATCGACACCGATAGATGA
1 AAGCCAGTGTAAGACATGTCTGGGACATGGCATCGACACCGTTAGACGA
* * * * * * *
79870759 GAGCCAATGTAAGACCTGTCTGTGACATGGCATCGGC-CTCGTTATATGA
1 AAGCCAGTGTAAGACATGTCTGGGACATGGCATCGACAC-CGTTAGACGA
*
79870808 AAGCCAATGTAAGATCATGTCTGGGACATGGCAT
1 AAGCCAGTGTAAGA-CATGTCTGGGACATGGCAT
79870842 TGGCATCTTA
Statistics
Matches: 153, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
46 23 0.15
47 7 0.05
48 1 0.01
49 104 0.68
50 18 0.12
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.24
Consensus pattern (49 bp):
AAGCCAGTGTAAGACATGTCTGGGACATGGCATCGACACCGTTAGACGA
Found at i:79875939 original size:21 final size:21
Alignment explanation
Indices: 79875915--79875956 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
79875905 GAGCTGAATC
79875915 TTGCTAATAACTAATAATCCA
1 TTGCTAATAACTAATAATCCA
79875936 TTGCTAATAACTAATAATCCA
1 TTGCTAATAACTAATAATCCA
79875957 AAGAGTTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.19, G:0.05, T:0.33
Consensus pattern (21 bp):
TTGCTAATAACTAATAATCCA
Found at i:79877403 original size:46 final size:46
Alignment explanation
Indices: 79877336--79877511 Score: 234
Period size: 46 Copynumber: 3.8 Consensus size: 46
79877326 TGTAACCCGC
*
79877336 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
79877382 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
79877432 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
79877475 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
79877512 TGCCCAAATA
Statistics
Matches: 113, Mismatches: 8, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:79877451 original size:93 final size:93
Alignment explanation
Indices: 79877343--79877515 Score: 337
Period size: 93 Copynumber: 1.9 Consensus size: 93
79877333 CGCCCATAAG
79877343 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
79877408 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
79877436 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
79877501 ACGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
79877516 CAAATATCCT
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 79 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:79879938 original size:30 final size:30
Alignment explanation
Indices: 79879894--79879982 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
79879884 CAAAGATAAC
79879894 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
79879923 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
79879953 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
79879983 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:79879942 original size:15 final size:15
Alignment explanation
Indices: 79879894--79879973 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
79879884 CAAAGATAAC
*
79879894 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
79879908 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
79879923 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
79879938 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
79879953 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
79879968 AAGAAA
1 AAGAAA
79879974 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:79879982 original size:15 final size:15
Alignment explanation
Indices: 79879905--79879982 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
79879895 AGAAAACCGA
79879905 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
79879920 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
79879934 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
79879949 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
79879965 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
79879980 ATA
1 ATA
79879983 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:79882957 original size:93 final size:93
Alignment explanation
Indices: 79882845--79883015 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
79882835 GCCCATAAGT
* *
79882845 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
79882910 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
79882938 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
79883003 CGAGTTCGGATGC
66 CGAGCTCGGATGC
79883016 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:79883012 original size:46 final size:46
Alignment explanation
Indices: 79882837--79883012 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
79882827 TGTAACCCGC
* *
79882837 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
79882883 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
79882929 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
79882976 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
79883013 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:79884379 original size:47 final size:48
Alignment explanation
Indices: 79884328--79884455 Score: 165
Period size: 46 Copynumber: 2.7 Consensus size: 48
79884318 CTGTATTAAC
*
79884328 TAGAACACATTAAATAAACTTAAGACATATTAAATGGT-TGAA-CTATT
1 TAGAACACATTAAATAAACTTAAGACATATTAAAT-GTCTGAATCTAAT
* * *
79884375 TAGAACACATT-AATTAGCTTAAGACATATT-AATTTCTGAATCTAAT
1 TAGAACACATTAAATAAACTTAAGACATATTAAATGTCTGAATCTAAT
* *
79884421 TAGAACATATTAAATAGACTTAAGACATATTAAAT
1 TAGAACACATTAAATAAACTTAAGACATATTAAAT
79884456 ACTTAAACTA
Statistics
Matches: 69, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
44 1 0.01
45 7 0.10
46 31 0.45
47 27 0.39
48 3 0.04
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.34
Consensus pattern (48 bp):
TAGAACACATTAAATAAACTTAAGACATATTAAATGTCTGAATCTAAT
Found at i:79884461 original size:18 final size:19
Alignment explanation
Indices: 79884425--79884461 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
79884415 TCTAATTAGA
79884425 ACATATTAAATAGACTTAAG
1 ACATATTAAATA-ACTTAAG
79884445 ACATATTAAAT-ACTTAA
1 ACATATTAAATAACTTAA
79884462 ACTAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (19 bp):
ACATATTAAATAACTTAAG
Found at i:79885720 original size:30 final size:30
Alignment explanation
Indices: 79885686--79885745 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
79885676 ACCCTTTGGC
* * *
79885686 ACTCTTGGCAATTTTCTCATTTGCATCCTT
1 ACTCTTGGCAATTATCTAATTCGCATCCTT
*
79885716 ACTCTTGGCGATTATCTAATTCGCATCCTT
1 ACTCTTGGCAATTATCTAATTCGCATCCTT
79885746 TCTTCCATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.18, C:0.27, G:0.12, T:0.43
Consensus pattern (30 bp):
ACTCTTGGCAATTATCTAATTCGCATCCTT
Found at i:79900972 original size:35 final size:35
Alignment explanation
Indices: 79900924--79901018 Score: 127
Period size: 35 Copynumber: 2.7 Consensus size: 35
79900914 GGTGTCGCCC
* * * *
79900924 TGAATGACCTATATGTCATTTACATGGTGTCAACT
1 TGAAGGACCTATATATCATTTACACGATGTCAACT
* * *
79900959 TGAAGGACTTATATACCATTTACACGATGTCACCT
1 TGAAGGACCTATATATCATTTACACGATGTCAACT
79900994 TGAAGGACCTATATATCATTTACAC
1 TGAAGGACCTATATATCATTTACAC
79901019 AGTGTCCCCT
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 51 1.00
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.34
Consensus pattern (35 bp):
TGAAGGACCTATATATCATTTACACGATGTCAACT
Found at i:79904966 original size:22 final size:20
Alignment explanation
Indices: 79904928--79904967 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
79904918 TTCCAATGCC
*
79904928 TATAATTATAGTGTAATATA
1 TATAATTATAGTCTAATATA
79904948 TATAACTTAGTAGTCTAATA
1 TATAA-TTA-TAGTCTAATA
79904968 ATAAAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 3 0.18
22 9 0.53
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.42
Consensus pattern (20 bp):
TATAATTATAGTCTAATATA
Found at i:79910302 original size:28 final size:28
Alignment explanation
Indices: 79910262--79910331 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
79910252 GCAATCAAAT
*
79910262 ATGGCACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
** *
79910290 ATGGCACTTAGTGTGTGAGATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* *
79910318 ACGACACTTAGTGT
1 ATGGCACTTAGTGT
79910332 GCAAAAAATC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Found at i:79914162 original size:27 final size:27
Alignment explanation
Indices: 79914124--79914181 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
79914114 GTTAGATCAA
79914124 GAAAACTGAGATTCGGGCTTAAATCGG
1 GAAAACTGAGATTCGGGCTTAAATCGG
*
79914151 GAAAACTGAGATTTGGGCTTAAATCGG
1 GAAAACTGAGATTCGGGCTTAAATCGG
79914178 GAAA
1 GAAA
79914182 GTTCGAGATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.36, C:0.12, G:0.29, T:0.22
Consensus pattern (27 bp):
GAAAACTGAGATTCGGGCTTAAATCGG
Found at i:79917329 original size:23 final size:24
Alignment explanation
Indices: 79917297--79917427 Score: 96
Period size: 23 Copynumber: 5.5 Consensus size: 24
79917287 CTGAGCTAAT
*
79917297 AAACAATAAGCT-TTATTGAGCTG
1 AAACAGTAAGCTCTTATTGAGCTG
* *
79917320 AAACAGTAAGCTCTT-TCGAGTTG
1 AAACAGTAAGCTCTTATTGAGCTG
*
79917343 -AATAGTAAGCTC--ATTCGAGCTG
1 AAACAGTAAGCTCTTATT-GAGCTG
* **
79917365 AAATAGTAAGCTCCAATT-AGCTG
1 AAACAGTAAGCTCTTATTGAGCTG
*
79917388 AAAACAATAAGCTCTT-TTGAGCTG
1 -AAACAGTAAGCTCTTATTGAGCTG
79917412 ATATATCAGTAAGCTC
1 A-A-A-CAGTAAGCTC
79917428 ATACGAGCTG
Statistics
Matches: 86, Mismatches: 11, Indels: 19
0.74 0.09 0.16
Matches are distributed among these distances:
21 1 0.01
22 16 0.19
23 37 0.43
24 19 0.22
25 4 0.05
26 9 0.10
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (24 bp):
AAACAGTAAGCTCTTATTGAGCTG
Found at i:79917352 original size:22 final size:23
Alignment explanation
Indices: 79917314--79917437 Score: 101
Period size: 23 Copynumber: 5.3 Consensus size: 23
79917304 AAGCTTTATT
* *
79917314 GAGCTGAAACAGTAAGCTCTTTC
1 GAGCTGAAATAGTAAGCTCATTC
*
79917337 GAGTTG-AATAGTAAGCTCATTC
1 GAGCTGAAATAGTAAGCTCATTC
79917359 GAGCTGAAATAGTAAGCTCCAATT-
1 GAGCTGAAATAGTAAGCT-C-ATTC
* * * *
79917383 -AGCTGAAAACAATAAGCTCTTTT
1 GAGCTG-AAATAGTAAGCTCATTC
*
79917406 GAGCTGATATATCAGTAAGCTCATAC
1 GAGCTGA-A-AT-AGTAAGCTCATTC
79917432 GAGCTG
1 GAGCTG
79917438 TGGTGAGTCC
Statistics
Matches: 80, Mismatches: 12, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
22 21 0.26
23 23 0.29
24 17 0.21
25 4 0.05
26 15 0.19
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (23 bp):
GAGCTGAAATAGTAAGCTCATTC
Found at i:79926448 original size:46 final size:46
Alignment explanation
Indices: 79926398--79926570 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
79926388 TGGTTGAGCA
79926398 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
79926444 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
79926489 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
79926537 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
79926571 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:79926554 original size:93 final size:93
Alignment explanation
Indices: 79926395--79926565 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
79926385 GGATGGTTGA
* *
79926395 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
79926460 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
79926488 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
79926553 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
79926566 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:79928419 original size:15 final size:15
Alignment explanation
Indices: 79928395--79928438 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
79928385 GAAGCCCAGA
*
79928395 ATAAATAAATCCAAG
1 ATAAAGAAATCCAAG
*
79928410 ATAAAGAAATCCATG
1 ATAAAGAAATCCAAG
* *
79928425 GTAAGGAAATCCAA
1 ATAAAGAAATCCAA
79928439 ATTATGATAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.55, C:0.14, G:0.14, T:0.18
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:79928977 original size:11 final size:11
Alignment explanation
Indices: 79928961--79928985 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
79928951 TTTCACTAAG
79928961 AGAACCAGTTC
1 AGAACCAGTTC
79928972 AGAACCAGTTC
1 AGAACCAGTTC
79928983 AGA
1 AGA
79928986 GGAGATCCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.24, G:0.20, T:0.16
Consensus pattern (11 bp):
AGAACCAGTTC
Found at i:79939299 original size:22 final size:23
Alignment explanation
Indices: 79939254--79939313 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 23
79939244 TCCATTGAGT
* * *
79939254 TGAAACAGTATGCTCTTTCAAGC
1 TGAAACAGTAAGCTCATACAAGC
*
79939277 T-AAACAGTAAGCTCATACGAGC
1 TGAAACAGTAAGCTCATACAAGC
**
79939299 TGAAATGGTAAGCTC
1 TGAAACAGTAAGCTC
79939314 CAATGAACTG
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
22 18 0.60
23 12 0.40
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (23 bp):
TGAAACAGTAAGCTCATACAAGC
Found at i:79941906 original size:42 final size:41
Alignment explanation
Indices: 79941859--79942015 Score: 147
Period size: 42 Copynumber: 3.7 Consensus size: 41
79941849 TGTGATTTAG
* *
79941859 TGTAAGACCATATCT-GGACGTTGGCATTGATTTGAGATTACA
1 TGTAAGACCATGTCTGGGACATTGGCATTGATTT--GATTACA
* * *
79941901 TGTAAGACCATGTCTGTGACATTGGCATCAT-ATTTGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCAT--TGATTTGATTACA
* * *
79941943 TGTAAGACCCTGTCTGGGACAATAGCATTGATATTTGATTACA
1 TGTAAGACCATGTCTGGGACATTGGCATTG--ATTTGATTACA
* * *
79941986 TGTAAGACCACGTTTGGGACGTTGGCATTG
1 TGTAAGACCATGTCTGGGACATTGGCATTG
79942016 TACGAGCTTT
Statistics
Matches: 92, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
40 1 0.01
42 43 0.47
43 43 0.47
44 4 0.04
45 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (41 bp):
TGTAAGACCATGTCTGGGACATTGGCATTGATTTGATTACA
Found at i:79941993 original size:85 final size:84
Alignment explanation
Indices: 79941846--79942013 Score: 203
Period size: 85 Copynumber: 2.0 Consensus size: 84
79941836 AGGATTTCCG
** *
79941846 ATATGTGATTTAGTGTAAGACCATATCTGGACGTTGGCATTGATTTGAGATTACATGTAAGACCA
1 ATATGTGATTTAGTGTAAGACCATATCTGGACAATAGCATTGATTTGAGATTACATGTAAGACCA
* *
79941911 TGTCTGTGACATTGGCATC
66 CGTCTGGGACATTGGCATC
* * * * *
79941930 ATATTTGATTTCGTGTAAGACCCTGTCTGGGACAATAGCATTGATATT-TGATTACATGTAAGAC
1 ATATGTGATTTAGTGTAAGACCATATCT-GGACAATAGCATTGAT-TTGAGATTACATGTAAGAC
* *
79941994 CACGTTTGGGACGTTGGCAT
64 CACGTCTGGGACATTGGCAT
79942014 TGTACGAGCT
Statistics
Matches: 70, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
84 24 0.34
85 44 0.63
86 2 0.03
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.35
Consensus pattern (84 bp):
ATATGTGATTTAGTGTAAGACCATATCTGGACAATAGCATTGATTTGAGATTACATGTAAGACCA
CGTCTGGGACATTGGCATC
Found at i:79942014 original size:43 final size:43
Alignment explanation
Indices: 79941859--79942015 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 43
79941849 TGTGATTTAG
** * *
79941859 TGTAAGACCATATCT-GGACGTTGGCATTGAT-TTGAGATTACA
1 TGTAAGACCACGTCTGGGACATTGGCATTGATATT-TGATTACA
* * * * *
79941901 TGTAAGACCATGTCTGTGACATTGGCA-TCATATTTGATTTCG
1 TGTAAGACCACGTCTGGGACATTGGCATTGATATTTGATTACA
* *
79941943 TGTAAGACC-CTGTCTGGGACAATAGCATTGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGACATTGGCATTGATATTTGATTACA
* *
79941986 TGTAAGACCACGTTTGGGACGTTGGCATTG
1 TGTAAGACCACGTCTGGGACATTGGCATTG
79942016 TACGAGCTTT
Statistics
Matches: 92, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
42 44 0.48
43 47 0.51
44 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACATTGGCATTGATATTTGATTACA
Found at i:79947427 original size:24 final size:25
Alignment explanation
Indices: 79947380--79947430 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
79947370 CTCGCTTGTA
*
79947380 CTTCCCGATATATGGCTATCCAGAG
1 CTTCCCGATATATGGCTATACAGAG
* *
79947405 CTTCCCGTTA-ATGGCTCTACAGAG
1 CTTCCCGATATATGGCTATACAGAG
79947429 CT
1 CT
79947431 ACTAGTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (25 bp):
CTTCCCGATATATGGCTATACAGAG
Found at i:79947897 original size:17 final size:17
Alignment explanation
Indices: 79947853--79947898 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 17
79947843 GAAATACATG
*
79947853 GAAATG-ATGGTAT-AT
1 GAAATGAATGATATAAT
*
79947868 GAAAT-ATTGATATAAT
1 GAAATGAATGATATAAT
79947884 GAAATGAATGATATA
1 GAAATGAATGATATA
79947899 TGTTTAGGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 10 0.40
16 7 0.28
17 8 0.32
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.33
Consensus pattern (17 bp):
GAAATGAATGATATAAT
Found at i:79960653 original size:40 final size:40
Alignment explanation
Indices: 79960586--79960799 Score: 181
Period size: 40 Copynumber: 5.4 Consensus size: 40
79960576 ATTGTATGAA
* * * *
79960586 TGCACATACGTTCCCCT-ATTGTACTTCGGTACTCCTAG-T
1 TGCACATACG-TGCCCTGTTTGTACTTCAGTACCCCTAGAT
* * * *
79960625 TGCACATGCGTGCCTCTGTTTTTACTTCGGTA-CCCTTGAT
1 TGCACATACGTGCC-CTGTTTGTACTTCAGTACCCCTAGAT
79960665 TGCACATACGTGTCCCTG-TTGTACTTCAGTACCCCTA-AT
1 TGCACATACGTG-CCCTGTTTGTACTTCAGTACCCCTAGAT
* *
79960704 TGCACATATGTGCCCCTATTTGTACTTCAGTACCCCT-GAT
1 TGCACATACGTG-CCCTGTTTGTACTTCAGTACCCCTAGAT
* * * * *
79960744 TGCACATACATGCCCCTATTTGTACTTTAGTACTCCT-GAA
1 TGCACATACGTG-CCCTGTTTGTACTTCAGTACCCCTAGAT
* *
79960784 TGCACTTACATGCCCT
1 TGCACATACGTGCCCT
79960800 TGATTATATT
Statistics
Matches: 149, Mismatches: 19, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
38 3 0.02
39 47 0.32
40 97 0.65
41 2 0.01
ACGTcount: A:0.19, C:0.30, G:0.15, T:0.36
Consensus pattern (40 bp):
TGCACATACGTGCCCTGTTTGTACTTCAGTACCCCTAGAT
Found at i:79960717 original size:79 final size:79
Alignment explanation
Indices: 79960586--79960798 Score: 232
Period size: 79 Copynumber: 2.7 Consensus size: 79
79960576 ATTGTATGAA
* * * * * * *
79960586 TGCACATACGT-TCCCCTATTGTACTTCGGTACTCCTAGTTGCACATGCGTGCCTCTGTTTTTAC
1 TGCACATACGTGT-CCCTATTGTACTTCAGTACCCCTAATTGCACATACGTGCCCCTATTTGTAC
* *
79960650 TTCGGTACCCTTGAT
65 TTCAGTACCCCTGAT
* *
79960665 TGCACATACGTGTCCCTGTTGTACTTCAGTACCCCTAATTGCACATATGTGCCCCTATTTGTACT
1 TGCACATACGTGTCCCTATTGTACTTCAGTACCCCTAATTGCACATACGTGCCCCTATTTGTACT
79960730 TCAGTACCCCTGAT
66 TCAGTACCCCTGAT
* * * * * *
79960744 TGCACATACATGCCCCTATTTGTACTTTAGTACTCCTGAA-TGCACTTACATGCCC
1 TGCACATACGTGTCCCTA-TTGTACTTCAGTACCCCT-AATTGCACATACGTGCCC
79960799 TTGATTATAT
Statistics
Matches: 112, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 81 0.72
80 29 0.26
81 2 0.02
ACGTcount: A:0.19, C:0.30, G:0.15, T:0.35
Consensus pattern (79 bp):
TGCACATACGTGTCCCTATTGTACTTCAGTACCCCTAATTGCACATACGTGCCCCTATTTGTACT
TCAGTACCCCTGAT
Found at i:79960721 original size:20 final size:19
Alignment explanation
Indices: 79960696--79960761 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
79960686 TACTTCAGTA
79960696 CCCCTAATTGCACATATGTG
1 CCCCTAATTGCACATA-GTG
* * * *
79960716 CCCCTATTTGTACTTCAGTA
1 CCCCTAATTGCACAT-AGTG
* *
79960736 CCCCTGATTGCACATACATG
1 CCCCTAATTGCACATA-GTG
79960756 CCCCTA
1 CCCCTA
79960762 TTTGTACTTT
Statistics
Matches: 33, Mismatches: 11, Indels: 4
0.69 0.23 0.08
Matches are distributed among these distances:
19 1 0.03
20 31 0.94
21 1 0.03
ACGTcount: A:0.23, C:0.35, G:0.12, T:0.30
Consensus pattern (19 bp):
CCCCTAATTGCACATAGTG
Found at i:79960815 original size:40 final size:39
Alignment explanation
Indices: 79960654--79960824 Score: 116
Period size: 40 Copynumber: 4.3 Consensus size: 39
79960644 TTTTACTTCG
* * * * * *
79960654 GTACCCTTGATTGCACATACGTGTCCCT-GTTGTACTTCA
1 GTACCC-TGAATGCACATACATGCCCCTATTTATACTTTA
** * *
79960693 GTACCCCT-AATTGCACATATGTGCCCCTATTTGTACTTCA
1 GTA-CCCTGAA-TGCACATACATGCCCCTATTTATACTTTA
* *
79960733 GTACCCCTGATTGCACATACATGCCCCTATTTGTACTTTA
1 GTA-CCCTGAATGCACATACATGCCCCTATTTATACTTTA
* *
79960773 GTACTCCTGAATGCACTTACATGCCCTTGA-TTATA-TTCTA
1 GTAC-CCTGAATGCACATACATGCCCCT-ATTTATACTT-TA
79960813 GTAACCCTGAAT
1 GT-ACCCTGAAT
79960825 CAAATAGTAT
Statistics
Matches: 112, Mismatches: 12, Indels: 15
0.81 0.09 0.11
Matches are distributed among these distances:
38 1 0.01
39 22 0.20
40 85 0.76
41 4 0.04
ACGTcount: A:0.23, C:0.28, G:0.14, T:0.35
Consensus pattern (39 bp):
GTACCCTGAATGCACATACATGCCCCTATTTATACTTTA
Found at i:79962965 original size:29 final size:29
Alignment explanation
Indices: 79962875--79962985 Score: 111
Period size: 29 Copynumber: 3.9 Consensus size: 29
79962865 ACCCCTACAT
* *
79962875 ACATGCATATAGCCCACTAGGCCCAA-TC
1 ACATTCATATGGCCCACTAGGCCCAATTC
** * *
79962903 TTATTCAAATGGCCCTTCT--GCCCAATTC
1 ACATTCATATGGCCC-ACTAGGCCCAATTC
* *
79962931 ATATTCTTATGGCCCACTAGGCCCAATTC
1 ACATTCATATGGCCCACTAGGCCCAATTC
*
79962960 ACATTCATATGGCCCATTAGGCCCAA
1 ACATTCATATGGCCCACTAGGCCCAA
79962986 ATCATATTAT
Statistics
Matches: 66, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
27 8 0.12
28 24 0.36
29 34 0.52
ACGTcount: A:0.27, C:0.32, G:0.14, T:0.27
Consensus pattern (29 bp):
ACATTCATATGGCCCACTAGGCCCAATTC
Found at i:79966503 original size:45 final size:45
Alignment explanation
Indices: 79966340--79966570 Score: 214
Period size: 50 Copynumber: 4.9 Consensus size: 45
79966330 ATCAAAGTCA
* * * *
79966340 ATGCCATGTCCCAGACATGGTCTTATACTGACTCTCATATATCGAGGCCG
1 ATGCCATGTCCCAAACATGGTCTTACACTGA----CACATATC-ATGCCG
* * * **
79966390 ATGCCATGTCCCAAACATGGTCTTACACTGGCTC-TCATCTGTTGGTGTTG
1 ATGCCATGTCCCAAACATGGTCTTACACTGACACAT-ATC-----ATGCCG
* *
79966440 ATGCCATGTCCCAGACATGGTCTTACACTGACACATATCAAGCCG
1 ATGCCATGTCCCAAACATGGTCTTACACTGACACATATCATGCCG
*
79966485 ATGCCATGTCCCAAACATGCTCTTACACTGACACATATCATGCCG
1 ATGCCATGTCCCAAACATGGTCTTACACTGACACATATCATGCCG
*
79966530 ATGCCATGTTCCAAACAT-GTCTTACACTAGCACACATATCA
1 ATGCCATGTCCCAAACATGGTCTTACACT-G-ACACATATCA
79966571 CCAAAATGTC
Statistics
Matches: 152, Mismatches: 21, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
44 9 0.06
45 63 0.41
46 14 0.09
50 65 0.43
51 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.27
Consensus pattern (45 bp):
ATGCCATGTCCCAAACATGGTCTTACACTGACACATATCATGCCG
Found at i:79968402 original size:23 final size:23
Alignment explanation
Indices: 79968375--79968432 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 23
79968365 ACATATTTGA
79968375 TTATTTGA-TTTCTCGTTTCTCAT
1 TTATTT-ACTTTCTCGTTTCTCAT
79968398 TTATTTACTTTTCTCGTTTCTCAT
1 TTATTTAC-TTTCTCGTTTCTCAT
79968422 TTATTTACTTT
1 TTATTTACTTT
79968433 TCTTTTATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
22 1 0.03
23 9 0.27
24 23 0.70
ACGTcount: A:0.14, C:0.17, G:0.05, T:0.64
Consensus pattern (23 bp):
TTATTTACTTTCTCGTTTCTCAT
Found at i:79968412 original size:24 final size:24
Alignment explanation
Indices: 79968383--79968435 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
79968373 GATTATTTGA
79968383 TTTCTCGTTTCTCATTTATTTACT
1 TTTCTCGTTTCTCATTTATTTACT
79968407 TTTCTCGTTTCTCATTTATTTACT
1 TTTCTCGTTTCTCATTTATTTACT
79968431 TTTCT
1 TTTCT
79968436 TTTATTTCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.11, C:0.21, G:0.04, T:0.64
Consensus pattern (24 bp):
TTTCTCGTTTCTCATTTATTTACT
Found at i:79969701 original size:50 final size:52
Alignment explanation
Indices: 79969637--79969755 Score: 154
Period size: 50 Copynumber: 2.3 Consensus size: 52
79969627 TTAATAAAGC
* * * *
79969637 CATGCCTTATGTAACTCTCATGTTAGTT-AGGTTTCCATCA-TAAATTATGA-
1 CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTCCATCATTAAATTA-CAT
*
79969687 CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTACAT
1 CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTCCATCATTAAATTACAT
*
79969739 CATGCATTAAGTAACTC
1 CATGCATTATGTAACTC
79969756 ATTTGTTCAT
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
50 26 0.43
51 11 0.18
52 23 0.38
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (52 bp):
CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTCCATCATTAAATTACAT
Found at i:79971593 original size:16 final size:16
Alignment explanation
Indices: 79971574--79971609 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
79971564 CTTAAAAAAT
79971574 ATAAAAATTAAAAT-TA
1 ATAAAAA-TAAAATATA
79971590 ATAAAAATAAAATATA
1 ATAAAAATAAAATATA
79971606 ATAA
1 ATAA
79971610 TTAAATTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
ATAAAAATAAAATATA
Found at i:79971599 original size:22 final size:23
Alignment explanation
Indices: 79971558--79971601 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
79971548 GACTAAAATT
79971558 TTAAAACTTAAAAAATATAAAAA
1 TTAAAACTTAAAAAATATAAAAA
79971581 TTAAAA-TTAATAAAA-ATAAAA
1 TTAAAACTTAA-AAAATATAAAA
79971602 TATAATAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (23 bp):
TTAAAACTTAAAAAATATAAAAA
Found at i:79972645 original size:26 final size:31
Alignment explanation
Indices: 79972613--79972677 Score: 77
Period size: 29 Copynumber: 2.2 Consensus size: 31
79972603 GTTAGTGATT
79972613 TAATATA-AAT-ATATAATTAT-TATT-TAA
1 TAATATAGAATAATATAATTATCTATTATAA
*
79972640 -AATATATGATTAATATAATTATCTATTATAA
1 TAATATA-GAATAATATAATTATCTATTATAA
79972671 TAATATA
1 TAATATA
79972678 TTCGAGTCGA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
26 6 0.19
28 2 0.06
29 10 0.32
30 4 0.13
31 3 0.10
32 6 0.19
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (31 bp):
TAATATAGAATAATATAATTATCTATTATAA
Found at i:79973318 original size:37 final size:38
Alignment explanation
Indices: 79973276--79973354 Score: 108
Period size: 37 Copynumber: 2.1 Consensus size: 38
79973266 ATTGACACAC
* *
79973276 TTTTAAATAATAAAAATTTAATATAAA-TCCTTAATT-T
1 TTTTAAATAACAAAAATTCAATATAAATTCC-TAATTCT
*
79973313 TTTTAAATAACAAAAATTCAATCTAAATTCCTAATTCT
1 TTTTAAATAACAAAAATTCAATATAAATTCCTAATTCT
79973351 TTTT
1 TTTT
79973355 CTTCTTGAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
37 29 0.78
38 8 0.22
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (38 bp):
TTTTAAATAACAAAAATTCAATATAAATTCCTAATTCT
Found at i:79981855 original size:10 final size:10
Alignment explanation
Indices: 79981842--79981916 Score: 53
Period size: 10 Copynumber: 7.5 Consensus size: 10
79981832 TAAAAAAATT
79981842 AAAAATTATA
1 AAAAATTATA
*
79981852 AAAAA-TATT
1 AAAAATTATA
* *
79981861 AAAATTTATT
1 AAAAATTATA
* *
79981871 TAAAATTATT
1 AAAAATTATA
*
79981881 AAAAATCATA
1 AAAAATTATA
* *
79981891 AAAAGTCATA
1 AAAAATTATA
*
79981901 AGAAATTATTA
1 AAAAATTA-TA
79981912 AAAAA
1 AAAAA
79981917 AGAATAAAAT
Statistics
Matches: 51, Mismatches: 12, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
9 7 0.14
10 38 0.75
11 6 0.12
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (10 bp):
AAAAATTATA
Found at i:79983327 original size:25 final size:25
Alignment explanation
Indices: 79983255--79983331 Score: 77
Period size: 25 Copynumber: 3.1 Consensus size: 25
79983245 GGACTCACCA
*
79983255 CAACTCGTATGAGCTTACCGAT-TT
1 CAACTCGTATGAGCTTACCGATACT
* * * *
79983279 ACAGCTCATGA-GAGCCTACTGATACT
1 -CAACTCGT-ATGAGCTTACCGATACT
79983305 CAACTCGTATGAGCTTACCGATACT
1 CAACTCGTATGAGCTTACCGATACT
79983330 CA
1 CA
79983332 GCTCAGAAGA
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
24 1 0.03
25 37 0.93
26 2 0.05
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (25 bp):
CAACTCGTATGAGCTTACCGATACT
Found at i:79983343 original size:25 final size:25
Alignment explanation
Indices: 79983265--79983347 Score: 73
Period size: 25 Copynumber: 3.3 Consensus size: 25
79983255 CAACTCGTAT
*
79983265 GAGCTTACCGAT-TTACAGCTCATG-A
1 GAGCTTACCGATACT-CAGCTCA-GAA
* * * *
79983290 GAGCCTACTGATACTCAACTC-GTAT
1 GAGCTTACCGATACTCAGCTCAG-AA
79983315 GAGCTTACCGATACTCAGCTCAGAA
1 GAGCTTACCGATACTCAGCTCAGAA
79983340 GAGCTTAC
1 GAGCTTAC
79983348 ATTATTTCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
23 1 0.02
25 42 0.93
26 2 0.04
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (25 bp):
GAGCTTACCGATACTCAGCTCAGAA
Found at i:79988518 original size:29 final size:30
Alignment explanation
Indices: 79988419--79988553 Score: 139
Period size: 30 Copynumber: 4.6 Consensus size: 30
79988409 CGTATAAGTG
* * * *
79988419 AGCCTTTGTGGCAATCTTTGTTAAAATGGA
1 AGCCTTTGTGGCGATCTTTATTATAATGAA
* * *
79988449 AGCCTTAGTGGCTATATTTATTATAATGAA
1 AGCCTTTGTGGCGATCTTTATTATAATGAA
* *
79988479 AGTCTTTGTGGCGATCTCTATTATAA-GAA
1 AGCCTTTGTGGCGATCTTTATTATAATGAA
*
79988508 AGCCTTTGTGGCGATCTTTGTTATAA-GAA
1 AGCCTTTGTGGCGATCTTTATTATAATGAA
* * *
79988537 AACCTTTATGGCTATCT
1 AGCCTTTGTGGCGATCT
79988554 CTGTCAAAAG
Statistics
Matches: 88, Mismatches: 17, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
29 43 0.49
30 45 0.51
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (30 bp):
AGCCTTTGTGGCGATCTTTATTATAATGAA
Found at i:79988571 original size:29 final size:29
Alignment explanation
Indices: 79988539--79988628 Score: 110
Period size: 29 Copynumber: 3.1 Consensus size: 29
79988529 TATAAGAAAA
* *
79988539 CCTTTATGGCTATCTCTGTCAAAAGGATT
1 CCTTTATGGCTATCTCTATCAAAAGGATG
* *
79988568 CCTTTATGGTTATATCTATCAAAAGGATG
1 CCTTTATGGCTATCTCTATCAAAAGGATG
* *
79988597 CCTTTATGGCTATCGCTAT-TAAAGGAATG
1 CCTTTATGGCTATCTCTATCAAAAGG-ATG
79988626 CCT
1 CCT
79988629 GGTGGCAAAC
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
28 5 0.10
29 47 0.90
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.37
Consensus pattern (29 bp):
CCTTTATGGCTATCTCTATCAAAAGGATG
Found at i:79992107 original size:27 final size:27
Alignment explanation
Indices: 79992077--79992297 Score: 309
Period size: 27 Copynumber: 8.2 Consensus size: 27
79992067 TTAGTTTACC
79992077 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * **
79992104 AAATTACCAAAATACCCTTGTTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
79992131 AAATTACCAAAATGCCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
79992158 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
79992185 AAA-TACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
79992211 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
79992238 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
** *
79992265 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
79992292 AAATTA
1 AAATTA
79992298 TTGAAATACC
Statistics
Matches: 170, Mismatches: 23, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
26 22 0.13
27 148 0.87
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:79992249 original size:107 final size:107
Alignment explanation
Indices: 79992081--79992281 Score: 321
Period size: 107 Copynumber: 1.9 Consensus size: 107
79992071 TTTACCAAAT
* * * *
79992081 TACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGTTTTACAAAATTACCAAAATGC
1 TACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGGTTTACAAAATTACCAAAATAC
* *
79992146 CCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAA
66 CCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAA
** *
79992188 TACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTATCAAAATAC
1 TACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGGTTTACAAAATTACCAAAATAC
79992253 CCCTAGTTTGTAAAATTACCAAAATACCC
66 CCCTAGTTTGTAAAATTACCAAAATACCC
79992282 CTAATTTGTG
Statistics
Matches: 85, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
107 85 1.00
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.30
Consensus pattern (107 bp):
TACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGGTTTACAAAATTACCAAAATAC
CCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAA
Found at i:79992321 original size:54 final size:54
Alignment explanation
Indices: 79992102--79992324 Score: 146
Period size: 54 Copynumber: 4.1 Consensus size: 54
79992092 CCCTGGTTTG
* ** ** * * ** *
79992102 TAAAATTACCAAAATACCCTTGTTTTACAAAATTACCAAAATGCCCCTG-GTTTG
1 TAAAATTACCAAAATACCCCTAATTTGTAAAATTATCAAAATACCCC-GAGCCTA
* * ** * * * ** *
79992156 TAAAATTACTAAAATACCCTTGGTTTATAAAA-TACCAAAATACCCCTAGTTTG
1 TAAAATTACCAAAATACCCCTAATTTGTAAAATTATCAAAATACCCCGAGCCTA
** * ** *
79992209 TAAAATTACCAAAATACCCCTGGTTTGTAAAATTATCAAAATACCCCTAGTTTG
1 TAAAATTACCAAAATACCCCTAATTTGTAAAATTATCAAAATACCCCGAGCCTA
* **
79992263 TAAAATTACCAAAATACCCCTAATTTGTGAAATTATTGAAATACCCTCGA-CCTA
1 TAAAATTACCAAAATACCCCTAATTTGTAAAATTATCAAAATACCC-CGAGCCTA
79992317 TAAAATTA
1 TAAAATTA
79992325 TTGAAATACC
Statistics
Matches: 148, Mismatches: 18, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
53 47 0.32
54 99 0.67
55 2 0.01
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.31
Consensus pattern (54 bp):
TAAAATTACCAAAATACCCCTAATTTGTAAAATTATCAAAATACCCCGAGCCTA
Found at i:79992321 original size:81 final size:81
Alignment explanation
Indices: 79992077--79992369 Score: 243
Period size: 81 Copynumber: 3.6 Consensus size: 81
79992067 TTAGTTTACC
* * * * ** **
79992077 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGTTTTACAAAATTACCAAA
1 AAATTATCAAAATACCCATAGTTTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACCAAA
* *** *
79992142 ATGCCCCTGGTTTGTA
66 ATACCCCTGACCTATA
* * * *
79992158 AAATTA-CTAAAATACCCTTGGTTTATAAAA-TACCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAATTATC-AAAATACCCATAGTTTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACCAA
*** *
79992221 AATACCCCTGGTTTGTA
65 AATACCCCTGACCTATA
* * ***
79992238 AAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTATTGAA
1 AAATTATCAAAATACCCATAGTTTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACCAAA
79992303 ATA-CCCTCGACCTATA
66 ATACCCCT-GACCTATA
** * * * *
79992319 AAATTATTGAAATA-CCATCGACTTGTAAAATTACCAAAGTACCCTTAATTT
1 AAATTATCAAAATACCCATAG-TTTGTAAAATTACCAAAATACCCCTAATTT
79992370 ACAGAATTAC
Statistics
Matches: 180, Mismatches: 27, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
80 78 0.43
81 102 0.57
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (81 bp):
AAATTATCAAAATACCCATAGTTTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACCAAA
ATACCCCTGACCTATA
Found at i:79992322 original size:27 final size:27
Alignment explanation
Indices: 79992292--79992351 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
79992282 CTAATTTGTG
*
79992292 AAATTATTGAAATACCCTCGACCTATA
1 AAATTATTGAAATACCATCGACCTATA
* *
79992319 AAATTATTGAAATACCATCGACTTGTA
1 AAATTATTGAAATACCATCGACCTATA
79992346 AAATTA
1 AAATTA
79992352 CCAAAGTACC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTATTGAAATACCATCGACCTATA
Found at i:79992430 original size:27 final size:28
Alignment explanation
Indices: 79992400--79992649 Score: 172
Period size: 27 Copynumber: 9.3 Consensus size: 28
79992390 TCGATTTACA
79992400 AAATTACCGAAATACCCTTGTAGAG-AG
1 AAATTACCGAAATACCCTTGTAGAGTAG
*
79992427 AAATGT--CGAAATACCCTTGTAGGGTAG
1 AAAT-TACCGAAATACCCTTGTAGAGTAG
** *
79992454 AAA-TACTAAAATACCCCTGTAG-GATAG
1 AAATTACCGAAATACCCTTGTAGAG-TAG
* *
79992481 AAA-TACTGAAATACCCCTGTA-AGGTAG
1 AAATTACCGAAATACCCTTGTAGA-GTAG
** * *
79992508 -AATTACTAAAATACCTTTGTAGTGTAG
1 AAATTACCGAAATACCCTTGTAGAGTAG
* *
79992535 -AATTACCGAAATACCATTGTAGGGTAG
1 AAATTACCGAAATACCCTTGTAGAGTAG
* * *
79992562 AAA-TATCGAAATACCCCTGTAGGGTAG
1 AAATTACCGAAATACCCTTGTAGAGTAG
*
79992589 -AATTACTGAAATACTCC-TGTA-AGGTAG
1 AAATTACCGAAATAC-CCTTGTAGA-GTAG
* *
79992616 -AATTACC-AAGATACCCTTGTGGGGTA-
1 AAATTACCGAA-ATACCCTTGTAGAGTAG
79992642 AAATTACC
1 AAATTACC
79992650 ATTTTACCCC
Statistics
Matches: 184, Mismatches: 22, Indels: 34
0.77 0.09 0.14
Matches are distributed among these distances:
25 1 0.01
26 26 0.14
27 151 0.82
28 6 0.03
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (28 bp):
AAATTACCGAAATACCCTTGTAGAGTAG
Found at i:79992496 original size:54 final size:54
Alignment explanation
Indices: 79992409--79992631 Score: 213
Period size: 54 Copynumber: 4.1 Consensus size: 54
79992399 AAAATTACCG
* * * *
79992409 AAATACCCTTGTA-GAGAGAAAT-GTCGAAATACCCTTGTAGGGTAGAAATACTA
1 AAATACCCCTGTAGGATAGAAATACT-GAAATACCCTTGTAAGGTAGAAATACTA
* *
79992462 AAATACCCCTGTAGGATAGAAATACTGAAATACCCCTGTAAGGTAGAATTACTA
1 AAATACCCCTGTAGGATAGAAATACTGAAATACCCTTGTAAGGTAGAAATACTA
** * * * * *
79992516 AAATACCTTTGTAGTG-TAGAATTACCGAAATACCATTGTAGGGTAGAAATA-TCG
1 AAATACCCCTGTAG-GATAGAAATACTGAAATACCCTTGTAAGGTAGAAATACT-A
* * * *
79992570 AAATACCCCTGTAGGGTAGAATTACTGAAATACTCC-TGTAAGGTAGAATTACCA
1 AAATACCCCTGTAGGATAGAAATACTGAAATAC-CCTTGTAAGGTAGAAATACTA
*
79992624 AGATACCC
1 AAATACCC
79992632 TTGTGGGGTA
Statistics
Matches: 139, Mismatches: 24, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
53 14 0.10
54 122 0.88
55 3 0.02
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.26
Consensus pattern (54 bp):
AAATACCCCTGTAGGATAGAAATACTGAAATACCCTTGTAAGGTAGAAATACTA
Found at i:79992535 original size:81 final size:81
Alignment explanation
Indices: 79992435--79992630 Score: 243
Period size: 81 Copynumber: 2.4 Consensus size: 81
79992425 AGAAATGTCG
* *
79992435 AAATACCCTTGTAGGGTAGAAATACTAAAATACCCCTGTAGGATAGAAATA-CTGAAATACCCCT
1 AAATACCCTTGTAGGGTAGAAATACCAAAATACCACTGTAGGATAGAAATATC-GAAATACCCCT
79992499 GTAAGGTAGAATTACTA
65 GTAAGGTAGAATTACTA
* * * * * *
79992516 AAATACCTTTGTAGTGTAGAATTACCGAAATACCATTGTAGGGTAGAAATATCGAAATACCCCTG
1 AAATACCCTTGTAGGGTAGAAATACCAAAATACCACTGTAGGATAGAAATATCGAAATACCCCTG
* *
79992581 TAGGGTAGAATTACTG
66 TAAGGTAGAATTACTA
* * *
79992597 AAATACTCC-TGTAAGGTAGAATTACCAAGATACC
1 AAATAC-CCTTGTAGGGTAGAAATACCAAAATACC
79992631 CTTGTGGGGT
Statistics
Matches: 98, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
81 96 0.98
82 2 0.02
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.26
Consensus pattern (81 bp):
AAATACCCTTGTAGGGTAGAAATACCAAAATACCACTGTAGGATAGAAATATCGAAATACCCCTG
TAAGGTAGAATTACTA
Found at i:79992641 original size:54 final size:53
Alignment explanation
Indices: 79992434--79992648 Score: 225
Period size: 54 Copynumber: 4.0 Consensus size: 53
79992424 GAGAAATGTC
* * *
79992434 GAAATACCCTTGTAGGGTAGAAATACTAAAATACCCCTGTAGGATAGAAATACT
1 GAAATACCC-TGTAAGGTAGAAATACTAAAATACCCCTGTAGGGTAGAATTACT
* ** * *
79992488 GAAATACCCCTGTAAGGTAGAATTACTAAAATACCTTTGTAGTGTAGAATTACC
1 GAAATA-CCCTGTAAGGTAGAAATACTAAAATACCCCTGTAGGGTAGAATTACT
* * *
79992542 GAAATACCATTGTAGGGTAGAAATA-TCGAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACC-CTGTAAGGTAGAAATACT-AAAATACCCCTGTAGGGTAGAATTACT
* * * * * *
79992596 GAAATACTCCTGTAAGGTAGAATTACCAAGATACCCTTGTGGGGTAAAATTAC
1 GAAATAC-CCTGTAAGGTAGAAATACTAAAATACCCCTGTAGGGTAGAATTAC
79992649 CATTTTACCC
Statistics
Matches: 131, Mismatches: 25, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
53 3 0.02
54 124 0.95
55 4 0.03
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.27
Consensus pattern (53 bp):
GAAATACCCTGTAAGGTAGAAATACTAAAATACCCCTGTAGGGTAGAATTACT
Found at i:79992938 original size:27 final size:26
Alignment explanation
Indices: 79992894--79992945 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
79992884 CTCGCTGCAA
*
79992894 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
79992921 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
79992946 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:79993073 original size:6 final size:6
Alignment explanation
Indices: 79993064--79993134 Score: 65
Period size: 6 Copynumber: 11.5 Consensus size: 6
79993054 TTGCATTCAC
* *
79993064 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TTACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
*
79993114 ATTCTG ATTCTG GTTCTG ATT
1 ATTCTG ATTCTG ATTCTG ATT
79993135 NNNNNNNNNN
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
5 4 0.08
6 41 0.77
7 5 0.09
8 3 0.06
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:79993095 original size:25 final size:25
Alignment explanation
Indices: 79993067--79993131 Score: 103
Period size: 25 Copynumber: 2.6 Consensus size: 25
79993057 CATTCACATT
*
79993067 CTGATTCTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTTACCTAATA
*
79993092 CTGATTCTGATTCTGTTACCTAATT
1 CTGATTCTGATTCTGTTACCTAATA
*
79993117 CTGATTCTGGTTCTG
1 CTGATTCTGATTCTG
79993132 ATTNNNNNNN
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (25 bp):
CTGATTCTGATTCTGTTACCTAATA
Found at i:79994542 original size:23 final size:23
Alignment explanation
Indices: 79994505--79994591 Score: 115
Period size: 23 Copynumber: 3.8 Consensus size: 23
79994495 TGATGGACAA
*
79994505 TAAGCTC-TACTGAGCTGAAACGG
1 TAAGCTCTTAC-GAGCTGAAACAG
*
79994528 TAAGCT-TTGACGAGCTGAATCAG
1 TAAGCTCTT-ACGAGCTGAAACAG
79994551 TAAGCTCTTACGAGCTGAAACAG
1 TAAGCTCTTACGAGCTGAAACAG
*
79994574 TAAGCTCTTATGAGCTGA
1 TAAGCTCTTACGAGCTGA
79994592 TATATCGGTA
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
23 53 0.93
24 4 0.07
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (23 bp):
TAAGCTCTTACGAGCTGAAACAG
Found at i:79997146 original size:22 final size:22
Alignment explanation
Indices: 79997088--79997146 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 22
79997078 GAATGGTATC
79997088 TACAAATCAAATCTCTAAGATT
1 TACAAATCAAATCTCTAAGATT
*
79997110 TACAAAATCATATCTCCTAAGA-T
1 TAC-AAATCAAATCT-CTAAGATT
*
79997133 TACATATCAAATCT
1 TACAAATCAAATCT
79997147 ACGATTGTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 12 0.38
23 14 0.44
24 6 0.19
ACGTcount: A:0.44, C:0.20, G:0.03, T:0.32
Consensus pattern (22 bp):
TACAAATCAAATCTCTAAGATT
Found at i:80006242 original size:37 final size:37
Alignment explanation
Indices: 80006187--80006264 Score: 120
Period size: 37 Copynumber: 2.1 Consensus size: 37
80006177 TATTACGAAA
** *
80006187 TCTTACCCGGACGTAATCTCCACACGAAGTTATCGGG
1 TCTTACCCGGACAAAATCTCCACACGAAGTCATCGGG
*
80006224 TCTTACCCGGACAAAATCTCCACACGTAGTCATCGGG
1 TCTTACCCGGACAAAATCTCCACACGAAGTCATCGGG
80006261 TCTT
1 TCTT
80006265 TAGAGCTCAG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCTCCACACGAAGTCATCGGG
Found at i:80006510 original size:49 final size:47
Alignment explanation
Indices: 80006383--80006744 Score: 544
Period size: 49 Copynumber: 7.6 Consensus size: 47
80006373 CCCTTCGGGA
* * * * * *
80006383 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
80006430 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
80006477 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
80006526 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
80006573 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
80006622 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
80006671 CCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
80006719 CTTATCACATATATACACTTTCACAT
1 CTTATCACATATATACACTTTCACAT
80006745 ATGGGTTTAA
Statistics
Matches: 292, Mismatches: 18, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
47 111 0.38
48 42 0.14
49 135 0.46
50 4 0.01
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:80006562 original size:96 final size:96
Alignment explanation
Indices: 80006383--80006744 Score: 561
Period size: 96 Copynumber: 3.8 Consensus size: 96
80006373 CCCTTCGGGA
* * * * * * *
80006383 CTTATCACAT-T-TATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
80006446 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
80006477 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
80006542 ACTTTCACATTCATCACATCGGCCATTAAGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
80006573 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
80006638 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
80006671 CCTATTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 CTTA-TCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
80006734 CACTTTCACAT
65 CACTTTCACAT
80006745 ATGGGTTTAA
Statistics
Matches: 247, Mismatches: 16, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
94 10 0.04
95 19 0.08
96 128 0.52
97 46 0.19
98 40 0.16
99 4 0.02
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:80010457 original size:25 final size:25
Alignment explanation
Indices: 80010439--80010489 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
80010429 TTGCACATAT
*
80010439 ATATATACTCATACATTGCTATTAC
1 ATATATACTCATACATTGCTAATAC
*
80010464 ATATATACTCATACATTGCTATTAC
1 ATATATACTCATACATTGCTAATAC
80010489 A
1 A
80010490 ACCGAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.20, G:0.04, T:0.39
Consensus pattern (25 bp):
ATATATACTCATACATTGCTAATAC
Found at i:80013039 original size:15 final size:14
Alignment explanation
Indices: 80013004--80013042 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
80012994 AAAATTAAAG
*
80013004 CACAAA-AATTTCA
1 CACAAATAAATTCA
80013017 CACAAATAAATTCA
1 CACAAATAAATTCA
80013031 CACATAATAAAT
1 CACA-AATAAAT
80013043 ACAAAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 6 0.26
14 10 0.43
15 7 0.30
ACGTcount: A:0.56, C:0.21, G:0.00, T:0.23
Consensus pattern (14 bp):
CACAAATAAATTCA
Found at i:80015005 original size:26 final size:26
Alignment explanation
Indices: 80014971--80015023 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
80014961 AGCTCTTAGG
80014971 AGTAAACTATCCATGTATCCATTGGT
1 AGTAAACTATCCATGTATCCATTGGT
*
80014997 AGTATACTATCCATGTATCCATTGGT
1 AGTAAACTATCCATGTATCCATTGGT
80015023 A
1 A
80015024 TTTCCGAGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (26 bp):
AGTAAACTATCCATGTATCCATTGGT
Found at i:80016181 original size:21 final size:21
Alignment explanation
Indices: 80016155--80016210 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
80016145 GTTATAATGA
*
80016155 CCACACAGGCGTGTTGCCCTT
1 CCACACGGGCGTGTTGCCCTT
80016176 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCGTGTTGCCCTT
*
80016197 CTACACGGGCGTGT
1 CCACACGGGCGTGT
80016211 GCCTTGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.12, C:0.36, G:0.29, T:0.23
Consensus pattern (21 bp):
CCACACGGGCGTGTTGCCCTT
Found at i:80032433 original size:68 final size:65
Alignment explanation
Indices: 80032219--80032470 Score: 217
Period size: 68 Copynumber: 3.8 Consensus size: 65
80032209 CATAATTTTG
* * * * *
80032219 GCTCTCTTGTACACATGGTGAACACATAGTATCACCCATGTGACCTAGCCAC-TTTA-TCTCGTA
1 GCTCTCTTGTACACATGGTGTACACATAGTACCACACATGTGACCTAGCTACATCTATTCTCGTA
** * * * * **
80032282 GCTCTCTTGTTTACATGGTGTCCTTCACCTGGAACCACACATGCAACCTAGCTACATCTA-TCTC
1 GCTCTCTTGTACACATGGTG---TACACATAGTACCACACATGTGACCTAGCTACATCTATTCTC
*
80032346 TTA
63 GTA
* *
80032349 GCTCTCTTGT-CTACATGGTGTACACATAGTATCACCCATGTGACCTAGCTACATCGTAATGTCT
1 GCTCTCTTGTAC-ACATGGTGTACACATAGTACCACACATGTGACCTAGCTACATC-T-AT-TCT
80032413 CGTA
62 CGTA
* * * *
80032417 GCTCTCTTGTACACATGATGTGCAC-TCAGCACCATACATGTGACCTAGCTACAT
1 GCTCTCTTGTACACATGGTGTACACAT-AGTACCACACATGTGACCTAGCTACAT
80032471 ACCATCTGTA
Statistics
Matches: 148, Mismatches: 30, Indels: 17
0.76 0.15 0.09
Matches are distributed among these distances:
63 18 0.12
64 27 0.18
65 1 0.01
66 23 0.16
67 28 0.19
68 50 0.34
69 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (65 bp):
GCTCTCTTGTACACATGGTGTACACATAGTACCACACATGTGACCTAGCTACATCTATTCTCGTA
Found at i:80032969 original size:30 final size:30
Alignment explanation
Indices: 80032935--80032995 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
80032925 TCCTTAACTC
80032935 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
80032965 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
80032995 A
1 A
80032996 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:80037905 original size:21 final size:22
Alignment explanation
Indices: 80037862--80037905 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
80037852 TTCGTATTAG
80037862 TGACTTTATATTTGAATGCAAA
1 TGACTTTATATTTGAATGCAAA
* *
80037884 TGACTTTA-ATTTGGATGGAAA
1 TGACTTTATATTTGAATGCAAA
80037905 T
1 T
80037906 TTATGACTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.34, C:0.07, G:0.18, T:0.41
Consensus pattern (22 bp):
TGACTTTATATTTGAATGCAAA
Found at i:80044414 original size:45 final size:45
Alignment explanation
Indices: 80044350--80044440 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 45
80044340 AACCTTGTCA
80044350 CCCTATCTCTAGGCGTGCAATCAACTCCGCTTAATTATTTAAGAT
1 CCCTATCTCTAGGCGTGCAATCAACTCCGCTTAATTATTTAAGAT
* *
80044395 CCCTATCTCTAGGTGTGCAATCAACTTCGCTTAATTATTTAAGAT
1 CCCTATCTCTAGGCGTGCAATCAACTCCGCTTAATTATTTAAGAT
80044440 C
1 C
80044441 TACTCTTAGA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.35
Consensus pattern (45 bp):
CCCTATCTCTAGGCGTGCAATCAACTCCGCTTAATTATTTAAGAT
Found at i:80045288 original size:22 final size:21
Alignment explanation
Indices: 80045236--80045288 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
80045226 ACAGCCCGCA
**
80045236 ACACGGGCGTGTCCCAGGGTC
1 ACACGGGCGTGTCCCAGGACC
* *
80045257 ACACGAGCGTGTCCCTTGGACC
1 ACACGGGCGTGTCCC-AGGACC
80045279 ACACGGGCGT
1 ACACGGGCGT
80045289 TTGAGCCCTG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 14 0.54
22 12 0.46
ACGTcount: A:0.17, C:0.34, G:0.34, T:0.15
Consensus pattern (21 bp):
ACACGGGCGTGTCCCAGGACC
Found at i:80050311 original size:37 final size:37
Alignment explanation
Indices: 80050247--80050322 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
80050237 TTACAAGCCA
80050247 AAATCATTATAAGCCACATCTCATGGCTACAT-ACAAC
1 AAATCATTATAAGCCACATCTCATGGCTA-ATCACAAC
*
80050284 AAATCATTATAAGCCA-ATACAT-TTGGCTAATCACAAC
1 AAATCATTATAAGCCACAT-C-TCATGGCTAATCACAAC
80050321 AA
1 AA
80050323 CATCGATCAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
36 4 0.11
37 30 0.86
38 1 0.03
ACGTcount: A:0.43, C:0.24, G:0.08, T:0.25
Consensus pattern (37 bp):
AAATCATTATAAGCCACATCTCATGGCTAATCACAAC
Found at i:80054167 original size:41 final size:41
Alignment explanation
Indices: 80054122--80054199 Score: 156
Period size: 41 Copynumber: 1.9 Consensus size: 41
80054112 TCATTCCGTA
80054122 AAATCGTAGACCATAAAAATATAATAAAAAATAAATTCATG
1 AAATCGTAGACCATAAAAATATAATAAAAAATAAATTCATG
80054163 AAATCGTAGACCATAAAAATATAATAAAAAATAAATT
1 AAATCGTAGACCATAAAAATATAATAAAAAATAAATT
80054200 TTCTTACGTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.60, C:0.09, G:0.06, T:0.24
Consensus pattern (41 bp):
AAATCGTAGACCATAAAAATATAATAAAAAATAAATTCATG
Found at i:80069416 original size:9 final size:9
Alignment explanation
Indices: 80069402--80069478 Score: 93
Period size: 9 Copynumber: 8.6 Consensus size: 9
80069392 ATAAGTATAA
*
80069402 AATTAAACG
1 AATTAACCG
*
80069411 AATTAACTG
1 AATTAACCG
*
80069420 AATTAATCG
1 AATTAACCG
80069429 AATTAACCG
1 AATTAACCG
80069438 AATT-ACCTG
1 AATTAACC-G
* *
80069447 AATTACCCA
1 AATTAACCG
80069456 AATTAACCG
1 AATTAACCG
80069465 AATTAACCG
1 AATTAACCG
80069474 AATTA
1 AATTA
80069479 TTTGTATAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
8 3 0.05
9 52 0.91
10 2 0.04
ACGTcount: A:0.45, C:0.18, G:0.09, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:80069514 original size:5 final size:6
Alignment explanation
Indices: 80069499--80069539 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
80069489 ATTATATGTT
*
80069499 TTTTTA TTTTTA TTTTTA GTTTTATA TTTTTA TTATTA TTT
1 TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
80069540 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 21 0.68
7 8 0.26
8 2 0.06
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:80069586 original size:5 final size:5
Alignment explanation
Indices: 80069578--80069613 Score: 63
Period size: 5 Copynumber: 7.2 Consensus size: 5
80069568 GGTTGGGCAA
*
80069578 TTGGG TTGGG TTGGG TTGGG TTCGG TTGGG TTGGG T
1 TTGGG TTGGG TTGGG TTGGG TTGGG TTGGG TTGGG T
80069614 ACTTGGGTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.00, C:0.03, G:0.56, T:0.42
Consensus pattern (5 bp):
TTGGG
Found at i:80070712 original size:21 final size:21
Alignment explanation
Indices: 80070686--80070727 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
80070676 TCGGGACAAA
80070686 GGACTAAAATGAATAAAATGG
1 GGACTAAAATGAATAAAATGG
80070707 GGACTAAAATGAATAAAATGG
1 GGACTAAAATGAATAAAATGG
80070728 AAAACAACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.05, G:0.24, T:0.19
Consensus pattern (21 bp):
GGACTAAAATGAATAAAATGG
Found at i:80074861 original size:27 final size:26
Alignment explanation
Indices: 80074824--80074938 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
80074814 AGCATGGCTG
* *
80074824 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
80074850 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
80074878 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
80074905 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
80074932 CCAGAAC
1 CCAGAAC
80074939 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:80074888 original size:54 final size:54
Alignment explanation
Indices: 80074824--80074938 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
80074814 AGCATGGCTG
*
80074824 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
80074878 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
80074932 CCAGAAC
1 CCAGAAC
80074939 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:80076472 original size:26 final size:26
Alignment explanation
Indices: 80076434--80076514 Score: 117
Period size: 26 Copynumber: 3.1 Consensus size: 26
80076424 CATGAAATTC
* *
80076434 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
*
80076460 TTATCATGGAACATTTACCTAATCTA
1 TTATCATGGAACATTTACCTAACCTA
* *
80076486 TTATCATTGAATATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
80076512 TTA
1 TTA
80076515 ACAATTTGTA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 49 1.00
ACGTcount: A:0.36, C:0.21, G:0.05, T:0.38
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:80082195 original size:26 final size:26
Alignment explanation
Indices: 80082159--80082268 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
80082149 CATGAAATTC
80082159 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
80082185 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
80082211 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* * *
80082237 TTATGATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
80082263 TTATCA
1 TTATCA
80082269 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:80085741 original size:45 final size:44
Alignment explanation
Indices: 80085651--80085781 Score: 174
Period size: 45 Copynumber: 3.0 Consensus size: 44
80085641 CCGAATTTAT
* * *
80085651 TCACCGGCATT-TTGCCTGCTAGGCTCGAGGCCCGAAAAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAGGCCCGAATAATATC
* *
80085694 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATGTC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAGGCCCGAATAATATC
* *
80085739 TCACCAGCATTATAGCCTGCTAGGCTCCAAGGCCCAAATAATA
1 TCACCGGCATTATAGCCTGCTAGGCT-CAAGGCCCGAATAATA
80085782 CTGTACAACA
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
43 10 0.13
44 14 0.18
45 51 0.67
46 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (44 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAGGCCCGAATAATATC
Found at i:80093778 original size:45 final size:44
Alignment explanation
Indices: 80093680--80093808 Score: 152
Period size: 45 Copynumber: 2.9 Consensus size: 44
80093670 CCGAATTTAT
* * * * *
80093680 TCACCAGCATT-TTGCTTGCTAGGCTCGAGGCTCGAAAAATATC
1 TCACCAGCATTATAGCCTGCTAGGCTCAAGGCTCGAATAAGATC
** * *
80093723 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAAGGTC
1 TCACCAGCATTATAGCCTGCTAGGCTC-AAGGCTCGAATAAGATC
80093768 TCACCAGCATTATAGCCTGCTAGGCTCCAAGGCTCGAATAA
1 TCACCAGCATTATAGCCTGCTAGGCT-CAAGGCTCGAATAA
80093809 TACTGTACAA
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
43 9 0.13
44 13 0.18
45 48 0.68
46 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (44 bp):
TCACCAGCATTATAGCCTGCTAGGCTCAAGGCTCGAATAAGATC
Found at i:80098156 original size:13 final size:14
Alignment explanation
Indices: 80098138--80098167 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
80098128 ATGGACTTGC
80098138 TTGTACCTAA-GGA
1 TTGTACCTAAGGGA
80098151 TTGTACCTAAGGGA
1 TTGTACCTAAGGGA
80098165 TTG
1 TTG
80098168 CAATTTGGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (14 bp):
TTGTACCTAAGGGA
Found at i:80099176 original size:53 final size:53
Alignment explanation
Indices: 80099113--80099218 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
80099103 CTTGACCTAC
80099113 AAGCTCATGTAACCTTATTTAAATATATAAAATGTAATAAAAACTACTAGAAA
1 AAGCTCATGTAACCTTATTTAAATATATAAAATGTAATAAAAACTACTAGAAA
80099166 AAGCTCATGTAACCTTATTTAAATATATAAAATGTAATAAAAACTACTAGAAA
1 AAGCTCATGTAACCTTATTTAAATATATAAAATGTAATAAAAACTACTAGAAA
80099219 GCATAAATTA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.51, C:0.11, G:0.08, T:0.30
Consensus pattern (53 bp):
AAGCTCATGTAACCTTATTTAAATATATAAAATGTAATAAAAACTACTAGAAA
Found at i:80101773 original size:24 final size:24
Alignment explanation
Indices: 80101746--80101798 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
80101736 TTTAAGCTAC
* * * *
80101746 ATGTTAGTGGTTACTTCTACTTTT
1 ATGTCAGTGGCTACATCTACTATT
80101770 ATGTCAGTGGCTACATCTACTATT
1 ATGTCAGTGGCTACATCTACTATT
80101794 ATGTC
1 ATGTC
80101799 TAATTCTATG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.21, C:0.17, G:0.17, T:0.45
Consensus pattern (24 bp):
ATGTCAGTGGCTACATCTACTATT
Found at i:80102861 original size:17 final size:20
Alignment explanation
Indices: 80102825--80102862 Score: 55
Period size: 17 Copynumber: 2.0 Consensus size: 20
80102815 CGCGAGTTCC
80102825 TTTAGCCTAGATTCAATTAT
1 TTTAGCCTAGATTCAATTAT
80102845 TTTA-CCTA-ATT-AATTAT
1 TTTAGCCTAGATTCAATTAT
80102862 T
1 T
80102863 GATGTAGGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
18 3 0.17
19 4 0.22
20 4 0.22
ACGTcount: A:0.32, C:0.13, G:0.05, T:0.50
Consensus pattern (20 bp):
TTTAGCCTAGATTCAATTAT
Found at i:80105165 original size:21 final size:22
Alignment explanation
Indices: 80105140--80105197 Score: 100
Period size: 22 Copynumber: 2.7 Consensus size: 22
80105130 GATTTTAATT
*
80105140 TAGTTTTATTTTCTTC-GAAAA
1 TAGTTTTATTTTCTTCTAAAAA
80105161 TAGTTTTATTTTCTTCTAAAAA
1 TAGTTTTATTTTCTTCTAAAAA
80105183 TAGTTTTATTTTCTT
1 TAGTTTTATTTTCTT
80105198 ATTCTTCAAC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
21 16 0.46
22 19 0.54
ACGTcount: A:0.26, C:0.09, G:0.07, T:0.59
Consensus pattern (22 bp):
TAGTTTTATTTTCTTCTAAAAA
Found at i:80107429 original size:56 final size:57
Alignment explanation
Indices: 80107368--80107489 Score: 203
Period size: 56 Copynumber: 2.2 Consensus size: 57
80107358 GATGTATGCT
80107368 TGTGAATTTGAGAT-AATGATGCATGTTTGGAAATGTCTAATTAGTTGAAATGTATA
1 TGTGAATTTGAGATGAATGATGCATGTTTGGAAATGTCTAATTAGTTGAAATGTATA
***
80107424 TGTGAATTT-TTTTGAATGATGCATGTTTGGAAATGTCTAATTAGTTGAAATGTATA
1 TGTGAATTTGAGATGAATGATGCATGTTTGGAAATGTCTAATTAGTTGAAATGTATA
80107480 TGTGAATTTG
1 TGTGAATTTG
80107490 GTATAAATAG
Statistics
Matches: 61, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
55 1 0.02
56 60 0.98
ACGTcount: A:0.31, C:0.03, G:0.23, T:0.43
Consensus pattern (57 bp):
TGTGAATTTGAGATGAATGATGCATGTTTGGAAATGTCTAATTAGTTGAAATGTATA
Found at i:80115367 original size:48 final size:48
Alignment explanation
Indices: 80115294--80115487 Score: 235
Period size: 48 Copynumber: 4.0 Consensus size: 48
80115284 TAGGGTTATG
* * * *
80115294 TGTGATCCCAGGAAAGAGCATGTCTGGGACATGGCATTGGCATTGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* * *
80115342 TGTGATCCCATGTAAGACCAGGTCTGGGGCATGGCATTGGCATCGATT
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* * * *
80115390 TGTGATCTCATGTAAAACCATGTCTGGGACATGGCATTGGTATCAATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* * * * * *
80115438 TTTGATCTCATGTAAGACCATATCTGGGATATGGCATTAGTATCGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
80115486 TG
1 TG
80115488 AGACATCGTA
Statistics
Matches: 125, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 125 1.00
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
Found at i:80118809 original size:45 final size:45
Alignment explanation
Indices: 80118739--80118849 Score: 177
Period size: 45 Copynumber: 2.5 Consensus size: 45
80118729 GCCGATATCT
* * *
80118739 AGACATGGTCTTACACATAACCACATATATCGATGCCAATGTCCC
1 AGACGTGGTCTTACACAAAATCACATATATCGATGCCAATGTCCC
*
80118784 AGACGTGGTCTTACACAAAATCACATATATCGATGCCAATGTCCT
1 AGACGTGGTCTTACACAAAATCACATATATCGATGCCAATGTCCC
*
80118829 AGATGTGGTCTTACACAAAAT
1 AGACGTGGTCTTACACAAAAT
80118850 AAAATATTGG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 61 1.00
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.26
Consensus pattern (45 bp):
AGACGTGGTCTTACACAAAATCACATATATCGATGCCAATGTCCC
Found at i:80119965 original size:14 final size:15
Alignment explanation
Indices: 80119948--80119976 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
80119938 GCACAAAAAT
80119948 TTCACACAT-ATAAA
1 TTCACACATAATAAA
80119962 TTCACACATAATAAA
1 TTCACACATAATAAA
80119977 CACAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:80123955 original size:41 final size:41
Alignment explanation
Indices: 80123898--80123979 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
80123888 TTTTGTAAGA
80123898 GTGACTCTTCCTACAATTGACAAAGCACATGCCTCCCAACC
1 GTGACTCTTCCTACAATTGACAAAGCACATGCCTCCCAACC
* *
80123939 GTGACTCTTCCTACAATTGACAAAGCACGTGCCTTCCAACC
1 GTGACTCTTCCTACAATTGACAAAGCACATGCCTCCCAACC
80123980 ATTTAGTTGA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.28, C:0.35, G:0.13, T:0.23
Consensus pattern (41 bp):
GTGACTCTTCCTACAATTGACAAAGCACATGCCTCCCAACC
Found at i:80126852 original size:17 final size:19
Alignment explanation
Indices: 80126832--80126874 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
80126822 TAATATAAAC
80126832 ATTAAAATAA-A-TTTAAT
1 ATTAAAATAACACTTTAAT
*
80126849 ATTAAGATAATCACTTTAAT
1 ATTAAAATAA-CACTTTAAT
80126869 ATTAAA
1 ATTAAA
80126875 TTAATAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 9 0.43
19 1 0.05
20 11 0.52
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (19 bp):
ATTAAAATAACACTTTAAT
Found at i:80127300 original size:9 final size:9
Alignment explanation
Indices: 80127277--80127307 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
80127267 AAAATATCAT
80127277 ATTAATTTCA
1 ATTAATTT-A
80127287 ATTAATTTA
1 ATTAATTTA
80127296 ATTAATTTA
1 ATTAATTTA
80127305 ATT
1 ATT
80127308 TTTCTTAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 13 0.62
10 8 0.38
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (9 bp):
ATTAATTTA
Found at i:80136090 original size:21 final size:21
Alignment explanation
Indices: 80136064--80136104 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
80136054 AGACGAGCAA
* *
80136064 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
80136085 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
80136105 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:80142754 original size:30 final size:30
Alignment explanation
Indices: 80142718--80142780 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
80142708 GTTACGAGAG
*
80142718 TATCTAGATATATTTAACCCATACTTTATT
1 TATCTAGACATATTTAACCCATACTTTATT
* *
80142748 TATCTAGACCTATTTGACCCATACTTTATT
1 TATCTAGACATATTTAACCCATACTTTATT
80142778 TAT
1 TAT
80142781 TAACTGAAGC
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:0.30, C:0.19, G:0.05, T:0.46
Consensus pattern (30 bp):
TATCTAGACATATTTAACCCATACTTTATT
Found at i:80154625 original size:56 final size:56
Alignment explanation
Indices: 80154539--80154770 Score: 446
Period size: 56 Copynumber: 4.1 Consensus size: 56
80154529 ACAAGGGATG
80154539 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
80154595 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
80154651 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
* *
80154707 ATGGGCAAAACATGTCATCAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
80154763 ATGGGCAA
1 ATGGGCAA
80154771 TAAACTAATA
Statistics
Matches: 174, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 174 1.00
ACGTcount: A:0.46, C:0.09, G:0.22, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:80161340 original size:46 final size:46
Alignment explanation
Indices: 80161290--80161465 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
80161280 TGGTTGAGCA
80161290 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
80161336 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
80161381 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
80161429 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
80161466 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:80161446 original size:93 final size:93
Alignment explanation
Indices: 80161287--80161458 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
80161277 GGATGGTTGA
* *
80161287 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
80161352 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
80161380 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
80161445 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
80161459 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:80168923 original size:46 final size:46
Alignment explanation
Indices: 80168873--80169045 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
80168863 TGGTTGAGCA
80168873 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
80168919 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
80168964 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
80169012 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
80169046 GGGGCGGGTT
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:80169029 original size:93 final size:93
Alignment explanation
Indices: 80168870--80169040 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
80168860 GGATGGTTGA
* *
80168870 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
80168935 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
80168963 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
80169028 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
80169041 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:80175516 original size:17 final size:18
Alignment explanation
Indices: 80175494--80175535 Score: 77
Period size: 17 Copynumber: 2.4 Consensus size: 18
80175484 TACGAGGATT
80175494 TTAAAAATATGAAGAGC-
1 TTAAAAATATGAAGAGCA
80175511 TTAAAAATATGAAGAGCA
1 TTAAAAATATGAAGAGCA
80175529 TTAAAAA
1 TTAAAAA
80175536 CGGGGCTAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 17 0.71
18 7 0.29
ACGTcount: A:0.57, C:0.05, G:0.14, T:0.24
Consensus pattern (18 bp):
TTAAAAATATGAAGAGCA
Found at i:80176941 original size:25 final size:24
Alignment explanation
Indices: 80176895--80176941 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
80176885 TGATGAAAAC
* *
80176895 ATTAAATATGAATCATATAAATCA
1 ATTAAATATGAATCAAACAAATCA
*
80176919 ATTAAATTTTGAATCAAACAAAT
1 ATTAAA-TATGAATCAAACAAAT
80176942 AATGCAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 6 0.32
25 13 0.68
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.34
Consensus pattern (24 bp):
ATTAAATATGAATCAAACAAATCA
Found at i:80179810 original size:20 final size:20
Alignment explanation
Indices: 80179754--80179811 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
80179744 AGATCACTAA
*
80179754 TTTTATTTATTTTATTTTTCT
1 TTTTACTTATTTTA-TTTTCT
* * *
80179775 TTTTTCTT-TTTAATTTTGT
1 TTTTACTTATTTTATTTTCT
*
80179794 TTTTAGTTATTTTATTTT
1 TTTTACTTATTTTATTTT
80179812 TATTTTTTTA
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
19 11 0.38
20 12 0.41
21 6 0.21
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.79
Consensus pattern (20 bp):
TTTTACTTATTTTATTTTCT
Found at i:80179811 original size:15 final size:14
Alignment explanation
Indices: 80179754--80179821 Score: 61
Period size: 15 Copynumber: 4.9 Consensus size: 14
80179744 AGATCACTAA
80179754 TTTTATTTATTTTAT
1 TTTTA-TTATTTTAT
* *
80179769 TTTTCTT-TTTTCT
1 TTTTATTATTTTAT
*
80179782 TTTTA--ATTTTGT
1 TTTTATTATTTTAT
80179794 TTTTAGTTATTTTAT
1 TTTTA-TTATTTTAT
*
80179809 TTTTATTTTTTTA
1 TTTTATTATTTTA
80179822 GACTTTTTTC
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
12 10 0.23
13 9 0.21
14 9 0.21
15 15 0.35
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (14 bp):
TTTTATTATTTTAT
Found at i:80184607 original size:19 final size:18
Alignment explanation
Indices: 80184575--80184626 Score: 63
Period size: 19 Copynumber: 2.9 Consensus size: 18
80184565 ATCCGACGAA
*
80184575 GCCC-AATAAGTGATAAT
1 GCCCGAATAAATGATAAT
*
80184592 GCCTGAAATAAATGATAAT
1 GCCCG-AATAAATGATAAT
80184611 GCCCG-ATAAATGATAA
1 GCCCGAATAAATGATAA
80184627 ATGATATAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 14 0.47
19 16 0.53
ACGTcount: A:0.44, C:0.15, G:0.17, T:0.23
Consensus pattern (18 bp):
GCCCGAATAAATGATAAT
Done.