Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 192 of 328
Found at i:57212658 original size:133 final size:131
Alignment explanation
Indices: 57212190--57212673 Score: 445
Period size: 133 Copynumber: 3.7 Consensus size: 131
57212180 GCAATTTGCG
* * * * * *
57212190 GAATAGTGCCCTAAT-GTGTTGGGTTGCAATTTCGCGTTTGCTCGAAATAATTGAATATCCCTTC
1 GAATCGTGCCCT-ATCGTGTTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTC
* * * * *
57212254 A-AACTTTCACTCATGCCTTTTAAAAATTCTTTAAAACGAAGGCAAAGTTTGATATTTGGCAATT
65 AGAA-TTTCACTCATGTCTTTTAAAAATCCTTTAAAACGAAGGCAATGTTCGATGTTTGGCAATT
**
57212318 CGCG
129 C-AA
* * * *
57212322 GAATCGTACCCTAACGTGTTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCAAATATCCCTTCT
1 GAATCGTGCCCTATCGTGTTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTC-
* * * * * ** *
57212387 AG-ATTCCATTCAGGTCTTCTAAAAATCCTCTAAAACGAAGGCAATACTC-AGTGTTTGACAATT
65 AGAATTTCACTCATGTCTTTTAAAAATCCTTTAAAACGAAGGCAATGTTCGA-TGTTTGGCAATT
*
57212450 CGA
129 CAA
* * ** * * * *
57212453 GAATCATGCCCTATCGTGTTAGGTTGTGATTTCTCGTTTGTTCAAAACGATCGAATATTCTTTTA
1 GAATCGTGCCCTATCGTGTTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTCA
** * * *
57212518 GGTTTTCACTCATGTCTTTTAAGAAAACCCTTTAAAACAAAGGCTATGTTCGATGTTTGGCAATT
66 GAATTTCACTCATGTCTTTT-A-AAAATCCTTTAAAACGAAGGCAATGTTCGATGTTTGGCAATT
57212583 CAA
129 CAA
* *** * * *
57212586 GTATCGTGCCCTATCGCACTGGGTTGCAATCTCTCGTTTGTTCAAAACAATCGAGTATCTCTTCA
1 GAATCGTGCCCTATCGTGTTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTCA
* *
57212651 GAATTTCACTCATATTTTTTAAA
66 GAATTTCACTCATGTCTTTTAAA
57212674 GTGAGGCAAT
Statistics
Matches: 277, Mismatches: 67, Indels: 17
0.77 0.19 0.05
Matches are distributed among these distances:
130 2 0.01
131 69 0.25
132 102 0.37
133 103 0.37
134 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.36
Consensus pattern (131 bp):
GAATCGTGCCCTATCGTGTTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTCA
GAATTTCACTCATGTCTTTTAAAAATCCTTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCA
A
Found at i:57214308 original size:15 final size:15
Alignment explanation
Indices: 57214290--57214319 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
57214280 ATACATTTTC
57214290 ATAAACATCATTTAA
1 ATAAACATCATTTAA
*
57214305 ATAAATATCATTTAA
1 ATAAACATCATTTAA
57214320 CTGTAAACAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (15 bp):
ATAAACATCATTTAA
Found at i:57216920 original size:47 final size:47
Alignment explanation
Indices: 57216861--57216982 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
57216851 GCATTGGCAC
57216861 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATAGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATAGCATTTGG
*
57216908 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATAGCATTTGG
* *
57216955 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
57216983 CCAAGGCATG
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATAGCATTTGG
Found at i:57217169 original size:53 final size:54
Alignment explanation
Indices: 57216969--57217168 Score: 222
Period size: 55 Copynumber: 3.7 Consensus size: 54
57216959 ATAAGGATAT
* ** *
57216969 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAAT
1 CATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGCAAGGGTAC
* * * * *
57217023 CATGTAAGACCATGTCAAGACATGACATTGATGAGTTACTATAAGGCAAAGGTCC
1 CATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAAGGCAAGGGTAC
* * * *
57217078 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGTAAGGGTAC
1 CATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGCAAGGGTAC
* * * * *
57217131 CACGTAAGACTATGTCAAGACATGGCAATGGTAAGTTC
1 CATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC
57217169 AAAAAGGAAA
Statistics
Matches: 123, Mismatches: 22, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
53 44 0.36
54 34 0.28
55 45 0.37
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.23
Consensus pattern (54 bp):
CATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGCAAGGGTAC
Found at i:57219498 original size:19 final size:18
Alignment explanation
Indices: 57219462--57219499 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
57219452 AATTTTTCTC
*
57219462 ACAAAAATATCACCACAA
1 ACAAAAATATCACAACAA
57219480 ACAAAAATATCACGAACAA
1 ACAAAAATATCAC-AACAA
57219499 A
1 A
57219500 ATGATACCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.63, C:0.24, G:0.03, T:0.11
Consensus pattern (18 bp):
ACAAAAATATCACAACAA
Found at i:57224738 original size:29 final size:27
Alignment explanation
Indices: 57224704--57224806 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
57224694 TACTCAATCA
*
57224704 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
57224733 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
57224762 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
57224791 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
57224807 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:57227057 original size:43 final size:43
Alignment explanation
Indices: 57226991--57227121 Score: 165
Period size: 43 Copynumber: 3.0 Consensus size: 43
57226981 AGCTCGTACA
* *
57226991 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCACATATCG
* * * *
57227034 ATGCC-ACTGTCCCAGACAAGGTCTTACACATAAATCACAAATTG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGT-AATCACATATCG
* *
57227078 ATGCCAACGTCCCAAACATGGTCTTACACGAAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCACATATCG
57227121 A
1 A
57227122 AATCCTATGT
Statistics
Matches: 73, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
42 2 0.03
43 35 0.48
44 34 0.47
45 2 0.03
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAATCACATATCG
Found at i:57240817 original size:20 final size:21
Alignment explanation
Indices: 57240780--57240829 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
57240770 AAAAAATATT
57240780 TTTATCAA-AATATCTAAAAA
1 TTTATCAATAATATCTAAAAA
* *
57240800 TTTATCAATAAT-TTTAAAGA
1 TTTATCAATAATATCTAAAAA
*
57240820 TGTATCAATA
1 TTTATCAATA
57240830 TTTCTACCGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 23 0.88
21 3 0.12
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (21 bp):
TTTATCAATAATATCTAAAAA
Found at i:57244735 original size:6 final size:6
Alignment explanation
Indices: 57244724--57244752 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
57244714 TGAGTGTTTT
57244724 CTTCTC CTTCTC CTTCTC CTTCTC CTTCT
1 CTTCTC CTTCTC CTTCTC CTTCTC CTTCT
57244753 TGCTTCATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (6 bp):
CTTCTC
Found at i:57249127 original size:16 final size:15
Alignment explanation
Indices: 57249102--57249134 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
57249092 GATTAAGAAA
57249102 TTAGCAGTTAGTTAG
1 TTAGCAGTTAGTTAG
57249117 TTAGACAGTTAGTTAG
1 TTAG-CAGTTAGTTAG
57249133 TT
1 TT
57249135 GTTAAGCTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.27, C:0.06, G:0.24, T:0.42
Consensus pattern (15 bp):
TTAGCAGTTAGTTAG
Found at i:57249339 original size:12 final size:12
Alignment explanation
Indices: 57249322--57249354 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
57249312 AGTAAATAAG
57249322 AAATTTTATGGT
1 AAATTTTATGGT
57249334 AAATTTTATGGT
1 AAATTTTATGGT
57249346 AAATTTTAT
1 AAATTTTAT
57249355 TGTAGGTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (12 bp):
AAATTTTATGGT
Found at i:57250028 original size:28 final size:28
Alignment explanation
Indices: 57249969--57250031 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
57249959 AAATGCCAAA
*
57249969 TTTAAACTATTAAACAATAAATAACATT
1 TTTAAACTATTAAACAATAAATAACATC
* * *
57249997 TTTAAATTGTTAAACAATAAA-AGAGATC
1 TTTAAACTATTAAACAATAAATA-ACATC
57250025 TTTAAAC
1 TTTAAAC
57250032 CTTCAATTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
27 1 0.03
28 28 0.97
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.35
Consensus pattern (28 bp):
TTTAAACTATTAAACAATAAATAACATC
Found at i:57253330 original size:13 final size:13
Alignment explanation
Indices: 57253312--57253336 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57253302 TAATATTATT
57253312 AATATTTTTTTTA
1 AATATTTTTTTTA
57253325 AATATTTTTTTT
1 AATATTTTTTTT
57253337 TATTTTGAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
AATATTTTTTTTA
Found at i:57261157 original size:93 final size:93
Alignment explanation
Indices: 57261045--57261215 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
57261035 GCCCATAAGT
*
57261045 GAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGA-CGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
57261109 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
*
57261138 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
57261203 CGAGTTCGGATGC
66 CGAGTTCGGATGC
57261216 TCAACCATCC
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
93 73 0.97
94 2 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:57261231 original size:46 final size:46
Alignment explanation
Indices: 57261037--57261217 Score: 228
Period size: 46 Copynumber: 3.9 Consensus size: 46
57261027 TGTAACCCGC
*
57261037 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GA-GCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC--TCGCAT
*
57261083 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-CTCG---CAT
* * *
57261133 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCGCAT
57261176 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
57261218 AACCATCCTA
Statistics
Matches: 117, Mismatches: 9, Indels: 18
0.81 0.06 0.12
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 69 0.59
47 34 0.29
48 3 0.03
49 2 0.02
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCGCAT
Found at i:57269235 original size:30 final size:30
Alignment explanation
Indices: 57269199--57269266 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 30
57269189 TTGACTAATG
* **
57269199 AAAGGGATAGCTTCGGCTATTGAACTATGA
1 AAAGGGATAGCTTCAGCTATCAAACTATGA
* *
57269229 AAAGGGATAGCTTTAGCTATCAAATTATGA
1 AAAGGGATAGCTTCAGCTATCAAACTATGA
57269259 AAAGGGAT
1 AAAGGGAT
57269267 GGTGATGACC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.38, C:0.10, G:0.25, T:0.26
Consensus pattern (30 bp):
AAAGGGATAGCTTCAGCTATCAAACTATGA
Found at i:57269296 original size:29 final size:29
Alignment explanation
Indices: 57269255--57269354 Score: 128
Period size: 29 Copynumber: 3.4 Consensus size: 29
57269245 CTATCAAATT
*
57269255 ATGAAAAGGGATGGTGATGACCATCAACA
1 ATGAAAAGGGATGGTGACGACCATCAACA
* *
57269284 ATGAAAAGGGATGGTGACGACCAACAACT
1 ATGAAAAGGGATGGTGACGACCATCAACA
* * *
57269313 ATGAAAAAGGACGGTGACGACCATCAAAA
1 ATGAAAAGGGATGGTGACGACCATCAACA
*
57269342 TATGGAAAGGGAT
1 -ATGAAAAGGGAT
57269355 AGCTTCGACT
Statistics
Matches: 59, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
29 50 0.85
30 9 0.15
ACGTcount: A:0.43, C:0.14, G:0.28, T:0.15
Consensus pattern (29 bp):
ATGAAAAGGGATGGTGACGACCATCAACA
Found at i:57279778 original size:5 final size:5
Alignment explanation
Indices: 57279768--57279805 Score: 60
Period size: 5 Copynumber: 7.8 Consensus size: 5
57279758 CCAATTTGTG
*
57279768 AAAAT AAAAT AAAAT AAAAT TAAAT -AAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
57279806 AACACACAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:57279792 original size:15 final size:14
Alignment explanation
Indices: 57279768--57279805 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
57279758 CCAATTTGTG
57279768 AAAATAAAATAAAAT
1 AAAATAAAAT-AAAT
*
57279783 AAAATTAAATAAAT
1 AAAATAAAATAAAT
57279797 AAAATAAAA
1 AAAATAAAA
57279806 AACACACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAATAAAATAAAT
Found at i:57281189 original size:2 final size:2
Alignment explanation
Indices: 57281182--57281209 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
57281172 TTTGCTTTCA
57281182 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
57281210 GCATAATTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:57285468 original size:48 final size:47
Alignment explanation
Indices: 57285401--57285575 Score: 149
Period size: 48 Copynumber: 3.6 Consensus size: 47
57285391 TTAATCCAAA
57285401 AATAATATTTTTTAATAATTTAATATTAAATTTAATTTAATACATATCTT
1 AATAATA--TTTTAATAATTTAATATTAAATTTAATTTAATA-ATATCTT
* * * *
57285451 AATAGTATTTTATTAATTTAATATTGAAGTGATTAAGTT--TAATATCTT
1 AATAATATTTTAATAATTTAATATT-AAAT--TTAATTTAATAATATCTT
* * * *
57285499 AATACTATTTTAATAAGATT-ATATTAAATTTAATCTAATATGTATCTT
1 AATAATATTTTAATAA-TTTAATATTAAATTTAATTTAATA-ATATCTT
* * *
57285547 GATAAATATTATATTAATTTAATATTAAA
1 AAT-AATATTTTAATAATTTAATATTAAA
57285576 GTGATTAAGT
Statistics
Matches: 100, Mismatches: 16, Indels: 19
0.74 0.12 0.14
Matches are distributed among these distances:
45 5 0.05
47 5 0.05
48 53 0.53
49 25 0.25
50 6 0.06
51 6 0.06
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (47 bp):
AATAATATTTTAATAATTTAATATTAAATTTAATTTAATAATATCTT
Found at i:57285523 original size:96 final size:97
Alignment explanation
Indices: 57285410--57285590 Score: 267
Period size: 97 Copynumber: 1.9 Consensus size: 97
57285400 AAATAATATT
* * * *
57285410 TTTTAATAATTTAATATTAAATTTAATTTAATACATATCTTAAT-AGTATTTTATTAATTTAATA
1 TTTTAATAAATTAATATTAAATTTAATCTAATACATATCTTAATAAATATTATATTAATTTAATA
*
57285474 TTGAAGTGATTAAGTTTAATATCTTAATACTA
66 TTAAAGTGATTAAGTTTAATATCTTAATACTA
** *
57285506 TTTTAATAAGATT-ATATTAAATTTAATCTAATATGTATCTTGATAAATATTATATTAATTTAAT
1 TTTTAATAA-ATTAATATTAAATTTAATCTAATACATATCTTAATAAATATTATATTAATTTAAT
57285570 ATTAAAGTGATTAAGTTTAAT
65 ATTAAAGTGATTAAGTTTAAT
57285591 CATAGTTGAA
Statistics
Matches: 75, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
96 36 0.48
97 39 0.52
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.49
Consensus pattern (97 bp):
TTTTAATAAATTAATATTAAATTTAATCTAATACATATCTTAATAAATATTATATTAATTTAATA
TTAAAGTGATTAAGTTTAATATCTTAATACTA
Found at i:57288812 original size:42 final size:40
Alignment explanation
Indices: 57288706--57288822 Score: 110
Period size: 42 Copynumber: 2.8 Consensus size: 40
57288696 GTTGACCTTT
*
57288706 GAATCGAGTTAAATAACAAAGAATCAATTCAAGCAATAAAAA
1 GAATCGA-TTAAATAACAAACAATCAATTCAAGCAAT-AAAA
* * * *
57288748 GAATTGAGTCAATCAACAAAACAATCAATTCAAGTAAGT-AAA
1 GAATCGATTAAAT-AAC-AAACAATCAATTCAAGCAA-TAAAA
*
57288790 GAATCGATTTAAGATAACAAACAATCGATTCAA
1 GAATCGA-TTAA-ATAACAAACAATCAATTCAA
57288823 AAGAAACAAC
Statistics
Matches: 61, Mismatches: 9, Indels: 10
0.76 0.11 0.12
Matches are distributed among these distances:
41 4 0.07
42 32 0.52
43 22 0.36
44 3 0.05
ACGTcount: A:0.53, C:0.14, G:0.12, T:0.21
Consensus pattern (40 bp):
GAATCGATTAAATAACAAACAATCAATTCAAGCAATAAAA
Found at i:57288926 original size:20 final size:20
Alignment explanation
Indices: 57288901--57289013 Score: 111
Period size: 20 Copynumber: 5.5 Consensus size: 20
57288891 GTTGGCGTTT
57288901 GAATCGAGTT-AAACAACAAA
1 GAATCGA-TTCAAACAACAAA
*
57288921 GAATCGATTCAAACAATAAA
1 GAATCGATTCAAACAACAAA
*
57288941 CAATCGATTCAAACAACAAAAA
1 GAATCGATTCAAACAAC--AAA
* * *
57288963 GAATTGAGTCAATCAACAAAA
1 GAATCGATTCAAACAAC-AAA
* *
57288984 CAATCGATTCAAATAAGCAAA
1 GAATCGATTCAAACAA-CAAA
57289005 GAATCGATT
1 GAATCGATT
57289014 TAAGACAAAT
Statistics
Matches: 76, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
19 2 0.03
20 31 0.41
21 26 0.34
22 17 0.22
ACGTcount: A:0.53, C:0.17, G:0.12, T:0.19
Consensus pattern (20 bp):
GAATCGATTCAAACAACAAA
Found at i:57288986 original size:43 final size:43
Alignment explanation
Indices: 57288912--57288996 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
57288902 AATCGAGTTA
* *
57288912 AACAACAAAGAATCGATTCAAACAATAAACAATCGATTCAAAC
1 AACAACAAAGAATCGAGTCAAACAAAAAACAATCGATTCAAAC
* *
57288955 AACAA-AAAGAATTGAGTCAATCAACAAAACAATCGATTCAAA
1 AACAACAAAGAATCGAGTCAAACAA-AAAACAATCGATTCAAA
57288997 TAAGCAAAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
42 16 0.43
43 21 0.57
ACGTcount: A:0.56, C:0.19, G:0.08, T:0.16
Consensus pattern (43 bp):
AACAACAAAGAATCGAGTCAAACAAAAAACAATCGATTCAAAC
Found at i:57293343 original size:6 final size:6
Alignment explanation
Indices: 57293332--57293359 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
57293322 AATTAATTTG
57293332 TTTTTC TTTTTC TTTTTC TTTTTC TTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTT
57293360 GATAAAAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTC
Found at i:57296253 original size:19 final size:19
Alignment explanation
Indices: 57296229--57296287 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
57296219 AATGCACTTC
*
57296229 GTGTGCCAGTATGTGCTTT
1 GTGTGCCAGTATGCGCTTT
* * * *
57296248 GTGTGCTAGAATGCACTTC
1 GTGTGCCAGTATGCGCTTT
*
57296267 GTGTGCGAGTATGCGCTTT
1 GTGTGCCAGTATGCGCTTT
57296286 GT
1 GT
57296288 ACGCTAGGAT
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.14, C:0.17, G:0.32, T:0.37
Consensus pattern (19 bp):
GTGTGCCAGTATGCGCTTT
Found at i:57296256 original size:38 final size:38
Alignment explanation
Indices: 57296181--57296299 Score: 157
Period size: 38 Copynumber: 3.1 Consensus size: 38
57296171 ATGCGTCAGG
* * *
57296181 ATGCACTTCGTGTGCCAGATATGTACATCGTGCGCTAGA
1 ATGCACTTCGTGTGCCAG-TATGTGCTTTGTGCGCTAGA
*
57296220 ATGCACTTCGTGTGCCAGTATGTGCTTTGTGTGCTAGA
1 ATGCACTTCGTGTGCCAGTATGTGCTTTGTGCGCTAGA
* * * *
57296258 ATGCACTTCGTGTGCGAGTATGCGCTTTGTACGCTAGG
1 ATGCACTTCGTGTGCCAGTATGTGCTTTGTGCGCTAGA
57296296 ATGC
1 ATGC
57296300 GTTTTGTACA
Statistics
Matches: 71, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
38 53 0.75
39 18 0.25
ACGTcount: A:0.18, C:0.21, G:0.29, T:0.32
Consensus pattern (38 bp):
ATGCACTTCGTGTGCCAGTATGTGCTTTGTGCGCTAGA
Found at i:57296979 original size:18 final size:19
Alignment explanation
Indices: 57296946--57296981 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
57296936 ACAAATGTGT
57296946 TAAAATCATTAATTAAAAA
1 TAAAATCATTAATTAAAAA
*
57296965 TAAAAT-ATTATTTAAAA
1 TAAAATCATTAATTAAAA
57296982 TACCAATTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (19 bp):
TAAAATCATTAATTAAAAA
Found at i:57298050 original size:36 final size:39
Alignment explanation
Indices: 57297995--57298071 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 39
57297985 AATAATGATT
*
57297995 AAAAATCATAAAAATCTTATAAAAATT-TAAAA-TATAA
1 AAAAATAATAAAAATCTTATAAAAATTATAAAATTATAA
* *
57298032 AAAAATAATGAAAA-CTTATAAATATTATAAAATTATAA
1 AAAAATAATAAAAATCTTATAAAAATTATAAAATTATAA
57298070 AA
1 AA
57298072 TTAATTAAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 11 0.31
37 17 0.49
38 7 0.20
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.30
Consensus pattern (39 bp):
AAAAATAATAAAAATCTTATAAAAATTATAAAATTATAA
Found at i:57298067 original size:17 final size:17
Alignment explanation
Indices: 57298011--57298193 Score: 77
Period size: 19 Copynumber: 10.0 Consensus size: 17
57298001 CATAAAAATC
57298011 TTATAAAAATT-TAAAA
1 TTATAAAAATTATAAAA
* *
57298027 TATAAAAAAATAATGAAAA
1 T-TATAAAAATTAT-AAAA
*
57298046 CTTATAAATATTATAAAA
1 -TTATAAAAATTATAAAA
57298064 TTAT-AAAATTAATTAAACTTA
1 TTATAAAAATT-A-TAAA---A
* *
57298085 TTTTAAATATT-TAAAA
1 TTATAAAAATTATAAAA
* *
57298101 TTTTTAAAAAGTGT-TAGAA
1 -TTATAAAAA-T-TATAAAA
* * *
57298120 TTCTTCAAAATAATAAAAA
1 TT-ATAAAAATTAT-AAAA
57298139 TTATAAAAAGTTATAAAA
1 TTATAAAAA-TTATAAAA
* *
57298157 ATATTAAAATTGATATAAA
1 TTATAAAAATT-ATA-AAA
57298176 TTTATAAAAATTATAAAA
1 -TTATAAAAATTATAAAA
57298194 ACATCATAAA
Statistics
Matches: 127, Mismatches: 20, Indels: 38
0.69 0.11 0.21
Matches are distributed among these distances:
16 7 0.06
17 23 0.18
18 36 0.28
19 42 0.33
20 10 0.08
21 4 0.03
22 5 0.04
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.37
Consensus pattern (17 bp):
TTATAAAAATTATAAAA
Found at i:57298152 original size:10 final size:9
Alignment explanation
Indices: 57298126--57298194 Score: 77
Period size: 9 Copynumber: 7.4 Consensus size: 9
57298116 AGAATTCTTC
*
57298126 AAAATAATA
1 AAAATTATA
57298135 AAAATTATA
1 AAAATTATA
57298144 AAAAGTTATA
1 AAAA-TTATA
*
57298154 AAAA-TATT
1 AAAATTATA
57298162 AAAATTGATA
1 AAAATT-ATA
*
57298172 TAAATTTATA
1 -AAAATTATA
57298182 AAAATTATA
1 AAAATTATA
57298191 AAAA
1 AAAA
57298195 CATCATAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
8 7 0.14
9 25 0.49
10 14 0.27
11 5 0.10
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (9 bp):
AAAATTATA
Found at i:57298157 original size:28 final size:28
Alignment explanation
Indices: 57298126--57298194 Score: 86
Period size: 28 Copynumber: 2.4 Consensus size: 28
57298116 AGAATTCTTC
57298126 AAAATAATAAAAATT-ATAAAAAGTTATA
1 AAAAT-ATAAAAATTGATAAAAAGTTATA
* * *
57298154 AAAATATTAAAATTGATATAAATTTATA
1 AAAATATAAAAATTGATAAAAAGTTATA
57298182 AAAATTATAAAAA
1 AAAA-TATAAAAA
57298195 CATCATAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 8 0.23
28 20 0.57
29 7 0.20
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (28 bp):
AAAATATAAAAATTGATAAAAAGTTATA
Found at i:57298487 original size:17 final size:18
Alignment explanation
Indices: 57298457--57298491 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
57298447 CTAGTTCAAT
57298457 TAAATAAAACATTAAAAA
1 TAAATAAAACATTAAAAA
*
57298475 TAAA-AAAATATTAAAAA
1 TAAATAAAACATTAAAAA
57298492 AATATTGGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (18 bp):
TAAATAAAACATTAAAAA
Found at i:57298625 original size:20 final size:19
Alignment explanation
Indices: 57298600--57298671 Score: 65
Period size: 20 Copynumber: 3.7 Consensus size: 19
57298590 GTCCAATTCA
57298600 AATTTTTATGATTTTTATAT
1 AATTTTTAT-ATTTTTATAT
**
57298620 AATTTTTATAAGTTTATATT
1 AATTTTTATATTTTTATA-T
* *
57298640 AATTTTAATACTTTTA-AT
1 AATTTTTATATTTTTATAT
*
57298658 AACTTTTATTATTT
1 AATTTTTA-TATTT
57298672 GGATGATTTG
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
18 7 0.17
19 12 0.29
20 23 0.55
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (19 bp):
AATTTTTATATTTTTATAT
Found at i:57298646 original size:11 final size:10
Alignment explanation
Indices: 57298612--57298666 Score: 53
Period size: 9 Copynumber: 5.6 Consensus size: 10
57298602 TTTTTATGAT
57298612 TTTTATATAA
1 TTTTATATAA
57298622 TTTT-TATAA
1 TTTTATATAA
*
57298631 GTTTATATTAA
1 TTTTATA-TAA
*
57298642 TTTTA-ATAC
1 TTTTATATAA
57298651 TTTTA-ATAA
1 TTTTATATAA
57298660 CTTTTAT
1 -TTTTAT
57298667 TATTTGGATG
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
9 18 0.49
10 12 0.32
11 7 0.19
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (10 bp):
TTTTATATAA
Found at i:57302194 original size:44 final size:44
Alignment explanation
Indices: 57302140--57302357 Score: 231
Period size: 44 Copynumber: 4.9 Consensus size: 44
57302130 GAAAATGGCA
* **
57302140 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCCACT
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGTTACT
* * * ** *
57302184 AATCTCATCTCCCTAAAGTTGTAGTGGAGTAGATCGAAAATAGT
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGTTACT
* * *
57302228 GAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGTTAC-
1 -AATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGTTACT
* * * * *
57302272 AGATCTTGTCTCCCTGAAGTTGCAGTGGAGTAGATCGAAAATTACA
1 A-ATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTG-AAGTTACT
* *
57302318 AATCTTATCTTCCTGAAGTTGTGGTGGAGTAGATTGAAGT
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGT
57302358 CTTATCCCTC
Statistics
Matches: 142, Mismatches: 28, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
43 1 0.01
44 70 0.49
45 70 0.49
46 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGTTACT
Found at i:57302284 original size:89 final size:88
Alignment explanation
Indices: 57302138--57302649 Score: 311
Period size: 89 Copynumber: 5.8 Consensus size: 88
57302128 TGGAAAATGG
*
57302138 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCCACTAATCTCATCTCCCTAAAGT
1 CAAATCTTATCT-CCTGAAGTTGTAGTGGAGCAGATTGAAGTCACTAATCTCATCTCCCTAAAGT
*
57302203 TGTAGTGGAGTAGATCGAAAA-TA
65 TGCAGTGGAGTAGATCGAAAATTA
** * * ** *
57302226 GTGAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGTTAC-AGATCTTGTCTCCCTGAA
1 -CAAATCTTATCTCC-TGAAGTTGTAGTGGAGCAGATTGAAGTCACTA-ATCTCATCTCCCTAAA
57302290 GTTGCAGTGGAGTAGATCGAAAATTA
63 GTTGCAGTGGAGTAGATCGAAAATTA
* * * *
57302316 CAAATCTTATCTTCCTGAAGTTGTGGTGGAGTAGATTGAAGT--CTTATC-C--CT--CTGAAGT
1 CAAATCTTATC-TCCTGAAGTTGTAGTGGAGCAGATTGAAGTCACTAATCTCATCTCCCTAAAGT
* * ** * *
57302374 TACAATAAAGCAGA-CTGAAGA-TA
65 TGCAGTGGAGTAGATC-GAAAATTA
* * * * * *
57302397 GCAAATCCTATCTCTCTGAAGTTGCAGTAGAGC-GAACTAAAG-CTACAAATCTCATCTCCCTAA
1 -CAAATCTTATCTC-CTGAAGTTGTAGTGGAGCAG-ATTGAAGTC-ACTAATCTCATCTCCCTAA
* *
57302460 AGTTGCAGTGGAGCAGATC-AAAGTTA
62 AGTTGCAGTGGAGTAGATCGAAAATTA
** * * * ** ** ** * *
57302486 CATTTCTTATCTCTCTGAAGTTGCAATAGAGCAGGCTGAACACAGGAAATC-CAATCTCTCTGAA
1 CAAATCTTATCTC-CTGAAGTTGTAGTGGAGCAGATTGAAGTCA-CTAATCTC-ATCTCCCTAAA
* * * * * **
57302550 GTTACAGTAGAGTGGGT-TAAAGCTA
63 GTTGCAGTGGAGTAGATCGAAAATTA
* * *
57302575 CAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGTTAC-AAGTCTTATCTCCCTAAAG
1 CAAATCTTATCTCC-TGAAGTTGTAGTGGAGCAGATTGAAGTCACTAA-TCTCATCTCCCTAAAG
*
57302639 TTGCAGCGGAG
64 TTGCAGTGGAG
57302650 CAGACTACAG
Statistics
Matches: 326, Mismatches: 70, Indels: 55
0.72 0.16 0.12
Matches are distributed among these distances:
81 6 0.02
82 49 0.15
84 6 0.02
85 1 0.00
87 8 0.02
88 60 0.18
89 190 0.58
90 6 0.02
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (88 bp):
CAAATCTTATCTCCTGAAGTTGTAGTGGAGCAGATTGAAGTCACTAATCTCATCTCCCTAAAGTT
GCAGTGGAGTAGATCGAAAATTA
Found at i:57302519 original size:133 final size:133
Alignment explanation
Indices: 57302354--57302643 Score: 382
Period size: 133 Copynumber: 2.2 Consensus size: 133
57302344 GAGTAGATTG
* * * * *
57302354 AAGTCTTATCCCTCTGAAGTTACAATAAAGCAGACTGAAGATAGCAAATCCTATCTCTCTGAAGT
1 AAGTCTTATCTCTCTGAAGTTGCAATAAAGCAGACTGAACACAGCAAATCCAATCTCTCTGAAGT
*
57302419 TGCAGTAGAGCGAACTAAAGCTACAAATCTCATCTCCCTAAAGTTGCAGTGGAGCAGATCAAAGT
66 TACAGTAGAGCGAACTAAAGCTACAAATCTCATCTCCCTAAAGTTGCAGTGGAGCAGATCAAAGT
57302484 TAC
131 TAC
** * * *
57302487 ATTTCTTATCTCTCTGAAGTTGCAATAGAGCAGGCTGAACACAGGAAATCCAATCTCTCTGAAGT
1 AAGTCTTATCTCTCTGAAGTTGCAATAAAGCAGACTGAACACAGCAAATCCAATCTCTCTGAAGT
* *** * * * **
57302552 TACAGTAGAGTGGGTTAAAGCTACAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGT
66 TACAGTAGAGCGAACTAAAGCTACAAATCTCATCTCCCTAAAGTTGCAGTGGAGCAGATCAAAGT
57302617 TAC
131 TAC
* *
57302620 AAGTCTTATCTCCCTAAAGTTGCA
1 AAGTCTTATCTCTCTGAAGTTGCA
57302644 GCGGAGCAGA
Statistics
Matches: 133, Mismatches: 24, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
133 133 1.00
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (133 bp):
AAGTCTTATCTCTCTGAAGTTGCAATAAAGCAGACTGAACACAGCAAATCCAATCTCTCTGAAGT
TACAGTAGAGCGAACTAAAGCTACAAATCTCATCTCCCTAAAGTTGCAGTGGAGCAGATCAAAGT
TAC
Found at i:57302621 original size:44 final size:44
Alignment explanation
Indices: 57302357--57302656 Score: 201
Period size: 44 Copynumber: 6.8 Consensus size: 44
57302347 TAGATTGAAG
* * * * *
57302357 TCTTATCCCTCTGAAGTTACAATAAAGCAGACTGAAGATAGCAAA
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTAAAGATA-CAAA
* *
57302402 TCCTATCTCTCTGAAGTTGCAGTAGAGC-GAACTAAAGCTACAAA
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAG-ACTAAAGATACAAA
* * * * * **
57302446 TCTCATCTCCCTAAAGTTGCAGTGGAGCAGA-TCAAAGTTACATT
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGACT-AAAGATACAAA
* * * * * *
57302490 TCTTATCTCTCTGAAGTTGCAATAGAGCAGGCTGAACACAGGAAA
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTAAAGATA-CAAA
** * ** ** *
57302535 TCCAATCTCTCTGAAGTTACAGTAGAGTGGGTTAAAGCTACAAA
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTAAAGATACAAA
* * * * *
57302579 TCTTATCTC-CTTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAG
1 TCTTATCTCTC-TGAAGTTGCAGTAGAGCAGACTAAAGATACAAA
* * **
57302623 TCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTA
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTA
57302657 CAGTAGAGTA
Statistics
Matches: 194, Mismatches: 54, Indels: 15
0.74 0.21 0.06
Matches are distributed among these distances:
43 2 0.01
44 128 0.66
45 64 0.33
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (44 bp):
TCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTAAAGATACAAA
Found at i:57304579 original size:18 final size:21
Alignment explanation
Indices: 57304538--57304582 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
57304528 TTTTAGATTT
57304538 TATATGTATTATTTTTATCTA
1 TATATGTATTATTTTTATCTA
*
57304559 TATATTTATT-TTTTTA-CATA
1 TATATGTATTATTTTTATC-TA
57304579 TATA
1 TATA
57304583 CATATTCCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 12 0.55
21 9 0.41
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (21 bp):
TATATGTATTATTTTTATCTA
Found at i:57304675 original size:3 final size:3
Alignment explanation
Indices: 57304667--57304717 Score: 75
Period size: 3 Copynumber: 17.0 Consensus size: 3
57304657 TTGTAACCCC
* * *
57304667 ATT ATT ATT ATT ATT ATT ATC ATT ATT ATT ATT ATT ATT AAT GTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
57304715 ATT
1 ATT
57304718 TTGTGTTTTG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:57323304 original size:25 final size:24
Alignment explanation
Indices: 57323276--57323325 Score: 91
Period size: 24 Copynumber: 2.0 Consensus size: 24
57323266 TTTTTTTGTT
57323276 TTTTTAAATGGTTTTTTTTTCAAAC
1 TTTTTAAATGG-TTTTTTTTCAAAC
57323301 TTTTTAAATGGTTTTTTTTCAAAC
1 TTTTTAAATGGTTTTTTTTCAAAC
57323325 T
1 T
57323326 ACAATTTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.24, C:0.08, G:0.08, T:0.60
Consensus pattern (24 bp):
TTTTTAAATGGTTTTTTTTCAAAC
Found at i:57323425 original size:2 final size:2
Alignment explanation
Indices: 57323418--57323452 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
57323408 CCAAATTATC
57323418 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
57323453 CACATTTCTA
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:57324039 original size:95 final size:95
Alignment explanation
Indices: 57323869--57324058 Score: 258
Period size: 95 Copynumber: 2.0 Consensus size: 95
57323859 GATATGTAAT
* ** ** *
57323869 AACTCGATTTTTAATGGAGTTGAAAAATATGATTTCAGAATTTCATTTCTGTAAACAGTAAACTA
1 AACTCGATTTTCAATGGAGTTGAAAAATATGATTTCAGAACCTCATTTCCATAAACAATAAACTA
** *
57323934 AGTTCGTAAATATAAAATA-AGAATATTTAC
66 AGCCCATAAATATAAAATAGA-AATATTTAC
*
57323964 AACTCGATTTTCAATGGTGTTGAAAAATATGATTTCAGAACCTCATTTCCATAAA-ATATAAACT
1 AACTCGATTTTCAATGGAGTTGAAAAATATGATTTCAGAACCTCATTTCCATAAACA-ATAAACT
57324028 AAGCCCATAAATATAAAATAGAAATATTTAC
65 AAGCCCATAAATATAAAATAGAAATATTTAC
57324059 GGAGTTGATA
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
94 1 0.01
95 81 0.98
96 1 0.01
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.34
Consensus pattern (95 bp):
AACTCGATTTTCAATGGAGTTGAAAAATATGATTTCAGAACCTCATTTCCATAAACAATAAACTA
AGCCCATAAATATAAAATAGAAATATTTAC
Found at i:57324311 original size:21 final size:22
Alignment explanation
Indices: 57324271--57324317 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
57324261 GATGAATTCC
*
57324271 ATTAATATTAAATTATGTTTAA
1 ATTAATATTAAATAATGTTTAA
* *
57324293 ATTAA-ATTTAATAATGTTTTA
1 ATTAATATTAAATAATGTTTAA
57324314 ATTA
1 ATTA
57324318 GTTAATTAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (22 bp):
ATTAATATTAAATAATGTTTAA
Found at i:57326853 original size:20 final size:21
Alignment explanation
Indices: 57326823--57326863 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
57326813 TTTAATCATG
*
57326823 TAAATATATATAATTTAATTA
1 TAAATATATATAATTAAATTA
*
57326844 TAAA-ATATATTATTAAATTA
1 TAAATATATATAATTAAATTA
57326864 ATTAATTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TAAATATATATAATTAAATTA
Found at i:57326891 original size:25 final size:27
Alignment explanation
Indices: 57326837--57326893 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
57326827 TATATATAAT
*
57326837 TTAATTATAAAATATATTATTAAATTAA
1 TTAATTATAAAATATATTATT-AATGAA
57326865 TTAATTAT-AAATATCA-TATT-ATGAA
1 TTAATTATAAAATAT-ATTATTAATGAA
57326890 TTAA
1 TTAA
57326894 ATTAAATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 8 0.30
27 10 0.37
28 9 0.33
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (27 bp):
TTAATTATAAAATATATTATTAATGAA
Found at i:57327043 original size:25 final size:22
Alignment explanation
Indices: 57327003--57327057 Score: 74
Period size: 25 Copynumber: 2.4 Consensus size: 22
57326993 AAATAGATAT
*
57327003 TTATTATTTATCATTATTATTA
1 TTATTATTTATCATTATGATTA
57327025 TTATTATTCTATCAAATTATGATTA
1 TTATTATT-TATC--ATTATGATTA
57327050 TTATTATT
1 TTATTATT
57327058 AAAAATAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 8 0.28
23 4 0.14
25 17 0.59
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (22 bp):
TTATTATTTATCATTATGATTA
Found at i:57327317 original size:3 final size:3
Alignment explanation
Indices: 57327311--57327380 Score: 140
Period size: 3 Copynumber: 23.3 Consensus size: 3
57327301 AATAATATAT
57327311 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
57327359 TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
57327381 AAAGTAAAAG
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:57331103 original size:47 final size:47
Alignment explanation
Indices: 57331005--57331123 Score: 141
Period size: 47 Copynumber: 2.5 Consensus size: 47
57330995 CATCGATAAG
* * ** *
57331005 TACCTATACCATGGCCCATAGCCAAATCAAGGTAACTTATCCTGGAG
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCTAAAA
* * *
57331052 TACCTATACCATGTCCCGTAGCCAAATCAAGGTAGCTCCT-CTCAAAA
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCT-AAAA
*
57331099 TACCTATATCATGGCCCGTAGCCAA
1 TACCTATACCATGGCCCGTAGCCAA
57331124 TGCATTAACT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
46 2 0.03
47 59 0.97
ACGTcount: A:0.31, C:0.30, G:0.15, T:0.24
Consensus pattern (47 bp):
TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCTAAAA
Found at i:57341208 original size:25 final size:27
Alignment explanation
Indices: 57341172--57341249 Score: 71
Period size: 23 Copynumber: 3.1 Consensus size: 27
57341162 CATTTGTTGC
57341172 CTTTGGCTTGTGAACTCTTTCCTTGCTT
1 CTTT-GCTTGTGAACTCTTTCCTTGCTT
* *
57341200 CTTT-C-TGTG-AC-ATTT-GTTGC--
1 CTTTGCTTGTGAACTCTTTCCTTGCTT
57341220 CTTTGGCTTGTGAACTCTTTCCTTGCTT
1 CTTT-GCTTGTGAACTCTTTCCTTGCTT
57341248 CT
1 CT
57341250 AACATCCAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 16
0.66 0.07 0.28
Matches are distributed among these distances:
20 4 0.11
22 5 0.13
23 7 0.18
24 4 0.11
25 7 0.18
26 5 0.13
28 6 0.16
ACGTcount: A:0.08, C:0.24, G:0.18, T:0.50
Consensus pattern (27 bp):
CTTTGCTTGTGAACTCTTTCCTTGCTT
Found at i:57341209 original size:48 final size:48
Alignment explanation
Indices: 57341153--57341249 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
57341143 AATTATAGAT
57341153 TTTCTGTGACATTTGTTGCCTTTGGCTTGTGAACTCTTTCCTTGCTTC
1 TTTCTGTGACATTTGTTGCCTTTGGCTTGTGAACTCTTTCCTTGCTTC
57341201 TTTCTGTGACATTTGTTGCCTTTGGCTTGTGAACTCTTTCCTTGCTTC
1 TTTCTGTGACATTTGTTGCCTTTGGCTTGTGAACTCTTTCCTTGCTTC
57341249 T
1 T
57341250 AACATCCAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.08, C:0.23, G:0.19, T:0.51
Consensus pattern (48 bp):
TTTCTGTGACATTTGTTGCCTTTGGCTTGTGAACTCTTTCCTTGCTTC
Found at i:57341232 original size:23 final size:23
Alignment explanation
Indices: 57341157--57341232 Score: 68
Period size: 23 Copynumber: 3.2 Consensus size: 23
57341147 ATAGATTTTC
57341157 TGTGACATTTGTTGCCTTTGGCT
1 TGTGACATTTGTTGCCTTTGGCT
* *
57341180 TGTGAACTCTTTCCTTGCTTCTTT--C-
1 TGTG-AC-ATTT-GTTGC--CTTTGGCT
57341205 TGTGACATTTGTTGCCTTTGGCT
1 TGTGACATTTGTTGCCTTTGGCT
57341228 TGTGA
1 TGTGA
57341233 ACTCTTTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 16
0.67 0.07 0.26
Matches are distributed among these distances:
20 4 0.10
22 5 0.12
23 12 0.29
24 4 0.10
25 7 0.17
26 5 0.12
28 4 0.10
ACGTcount: A:0.09, C:0.20, G:0.22, T:0.49
Consensus pattern (23 bp):
TGTGACATTTGTTGCCTTTGGCT
Found at i:57345717 original size:92 final size:94
Alignment explanation
Indices: 57345598--57345772 Score: 248
Period size: 94 Copynumber: 1.9 Consensus size: 94
57345588 CCCCTATCTG
* * * *
57345598 TGTCGATGCCATGTCCCAGATATGGTCTTACACT-G-ACACA-ACTCTTAGCCGATGCATGTCCC
1 TGTCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATAAT-GTAGCCGATACATGTCCC
57345660 AAACATGTCTTACACTAGCACTCGTCTCAA
65 AAACATGTCTTACACTAGCACTCGTCTCAA
* * * *
57345690 TGTCGATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCATAATGTGGCCGATACATGTCCCA
1 TGTCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATAATGTAGCCGATACATGTCCCA
57345755 AACATGTCTTACACTAGC
66 AACATGTCTTACACTAGC
57345773 TCACATAAGT
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
92 32 0.44
93 1 0.01
94 37 0.51
95 2 0.03
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (94 bp):
TGTCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATAATGTAGCCGATACATGTCCCA
AACATGTCTTACACTAGCACTCGTCTCAA
Found at i:57345773 original size:46 final size:45
Alignment explanation
Indices: 57345645--57345780 Score: 143
Period size: 46 Copynumber: 2.9 Consensus size: 45
57345635 ACAACTCTTA
*
57345645 GCCGATGCATGTCCCAAACATGTCTTACACTAGCACTCGTC-TCAATGT
1 GCCGATACATGTCCCAAACATGTCTTACACTAG--CTC-TCAT-AATGT
* * *
57345693 --CGATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCATAATGT
1 GCCGAT-ACATGTCCCAAACAT-GTCTTACACTAGCTCTCATAATGT
*
57345738 GGCCGATACATGTCCCAAACATGTCTTACACTAGCTCACATAA
1 -GCCGATACATGTCCCAAACATGTCTTACACTAGCTCTCATAA
57345781 GTGATCCAAA
Statistics
Matches: 75, Mismatches: 7, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
45 7 0.09
46 28 0.37
47 24 0.32
48 16 0.21
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.27
Consensus pattern (45 bp):
GCCGATACATGTCCCAAACATGTCTTACACTAGCTCTCATAATGT
Found at i:57352887 original size:21 final size:21
Alignment explanation
Indices: 57352862--57352906 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
57352852 AGAAAAGGGG
57352862 AGTAAGCATAAAAGCTTAGTA
1 AGTAAGCATAAAAGCTTAGTA
57352883 AGTAAGCATAAAAGCTTAGTA
1 AGTAAGCATAAAAGCTTAGTA
57352904 AGT
1 AGT
57352907 TGCATATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.47, C:0.09, G:0.20, T:0.24
Consensus pattern (21 bp):
AGTAAGCATAAAAGCTTAGTA
Found at i:57353360 original size:46 final size:48
Alignment explanation
Indices: 57353178--57353393 Score: 164
Period size: 46 Copynumber: 4.6 Consensus size: 48
57353168 GGAAAATGCT
* * * * *
57353178 GATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTCGCCTATCCGTGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGACACTAGTCTA--AG-GCC
* * * *
57353228 GATGCCATATCCCAGACATGGTCTTACACT-GACACAACTCTTA-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGACACTAGTCTAAGGCC
* * * * **
57353274 GAT-ACATGTCTCAGACAT-GTCTAACACTGGGTTAC-A-TCTCAAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACT-AGACACTAGTCT-AAGGCC
*
57353320 GATG-CATGTCCCAGACAT-GTCTTACACTAG-CACTAGTCTCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGACACTAGTCT-AAGGCC
57353366 GATGCCATGTCCCAGACATGGTCTTACA
1 GATGCCATGTCCCAGACATGGTCTTACA
57353394 TTGGCTCTCA
Statistics
Matches: 135, Mismatches: 21, Indels: 22
0.76 0.12 0.12
Matches are distributed among these distances:
44 14 0.10
45 16 0.12
46 49 0.36
47 14 0.10
48 8 0.06
49 1 0.01
50 33 0.24
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.26
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGACACTAGTCTAAGGCC
Found at i:57353426 original size:94 final size:94
Alignment explanation
Indices: 57353172--57353444 Score: 256
Period size: 94 Copynumber: 2.9 Consensus size: 94
57353162 CATGAGGGAA
* * * * *
57353172 AATGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGCCTATCCGT-GTCGATGCCAT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-ACATAT-CGTGGCCGATG-CAT
57353236 ATCCCAGACATGGTCTTACACT-GACACAACTCT
63 ATCCCAGACAT-GTCTTACACTAG-CACAACTCT
* * * * * * ** *
57353269 TA-GCCGAT-ACATGTCTCAGACAT-GTCTAACACTGGGT-TACATCTCAAGGCCGATGCATGTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATATCGTGGCCGATGCATATC
* *
57353330 CCAGACATGTCTTACACTAGCACTAGTCT
66 CCAGACATGTCTTACACTAGCACAACTCT
*
57353359 CAATGCCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCT-CATAAT-GTGGCCGATGCATA
1 -AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACAT-ATCGTGGCCGATGCATA
* *
57353422 TCCCAGACATGACTTATACTAGC
64 TCCCAGACATGTCTTACACTAGC
57353445 TCACAAAAGT
Statistics
Matches: 140, Mismatches: 28, Indels: 19
0.75 0.15 0.10
Matches are distributed among these distances:
90 17 0.12
91 16 0.11
92 15 0.11
93 14 0.10
94 57 0.41
95 15 0.11
96 5 0.04
97 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (94 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATATCGTGGCCGATGCATATC
CCAGACATGTCTTACACTAGCACAACTCT
Found at i:57359686 original size:2 final size:2
Alignment explanation
Indices: 57359646--57359671 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
57359636 CTCGTACTTT
57359646 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
57359672 ATTAGTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:57361692 original size:18 final size:17
Alignment explanation
Indices: 57361665--57361698 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
57361655 TTGTGTTTAA
*
57361665 TTTTTTTTTTGAATTAG
1 TTTTTTTTTTAAATTAG
57361682 TTTTGTTTTTTAAATTA
1 TTTT-TTTTTTAAATTA
57361699 CGAAAATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.71
Consensus pattern (17 bp):
TTTTTTTTTTAAATTAG
Found at i:57362816 original size:14 final size:14
Alignment explanation
Indices: 57362797--57362829 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
57362787 TAGTTGTTTT
57362797 GTATTTAATATTTA
1 GTATTTAATATTTA
*
57362811 GTATTTATTATTTA
1 GTATTTAATATTTA
57362825 GTATT
1 GTATT
57362830 ACCTATATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (14 bp):
GTATTTAATATTTA
Found at i:57363364 original size:30 final size:30
Alignment explanation
Indices: 57363328--57363410 Score: 157
Period size: 30 Copynumber: 2.8 Consensus size: 30
57363318 TGACGACGCG
*
57363328 GGCCCATCAGCAGCGCCCACACAATCACCA
1 GGCCCATCAACAGCGCCCACACAATCACCA
57363358 GGCCCATCAACAGCGCCCACACAATCACCA
1 GGCCCATCAACAGCGCCCACACAATCACCA
57363388 GGCCCATCAACAGCGCCCACACA
1 GGCCCATCAACAGCGCCCACACA
57363411 GCCACCTGTG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (30 bp):
GGCCCATCAACAGCGCCCACACAATCACCA
Found at i:57364092 original size:10 final size:10
Alignment explanation
Indices: 57364069--57364101 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
57364059 TGACTACGGC
57364069 AATA-TTTTT
1 AATATTTTTT
57364078 AATATTTTTT
1 AATATTTTTT
*
57364088 TATATTTTTT
1 AATATTTTTT
57364098 AATA
1 AATA
57364102 AAATATAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 4 0.19
10 17 0.81
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (10 bp):
AATATTTTTT
Found at i:57367343 original size:126 final size:126
Alignment explanation
Indices: 57367118--57367677 Score: 897
Period size: 126 Copynumber: 4.5 Consensus size: 126
57367108 AGTTTAAGGC
* * *
57367118 TTTATCAGATACTACTGTAGCAAAATAGCGTCCACGTGGGAGCTTTTTTCTGTAATTTTACTAAC
1 TTTATCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTACTGAC
* * *
57367183 AGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTATTCAGAAACATCTTCTTAAAATTAT
66 AGTGCATCCTTCTTGAAGCGTTTTTAACACTATTTGTTCAGAAACATCTTCTCAAAATTAT
* * *
57367244 TTTATCAGATACTACTGTAGCAAAAGAACGTTCACGTAGGAGCTTTTTTCCGTAATTTTACTGAC
1 TTTATCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTACTGAC
*
57367309 AGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTAT
66 AGTGCATCCTTCTTGAAGCGTTTTTAACACTATTTGTTCAGAAACATCTTCTCAAAATTAT
* * *
57367370 TTTATTAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCATAATTTTGCTGAC
1 TTTATCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTACTGAC
* *
57367435 AGTGCATCCTTCTTGAAACGTTTTTAACACTATTTGTTCAGAAACATCTTCTCAAATTTAT
66 AGTGCATCCTTCTTGAAGCGTTTTTAACACTATTTGTTCAGAAACATCTTCTCAAAATTAT
* * *
57367496 TTT-TCAGATACTACTGCAGCAAAAGAGCGTCCACATGGGACCTTTTTTCCGTAATTTTACTGAC
1 TTTATCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTACTGAC
* * *
57367560 AGTGCATCCTTCTTGAAGCGTTTTTAACACTATTTGTTCAGAAATATATTCTCAAATTTAT
66 AGTGCATCCTTCTTGAAGCGTTTTTAACACTATTTGTTCAGAAACATCTTCTCAAAATTAT
* * *
57367621 TTTTTCAGATACTACTGTAGCAAAAGAGCGTTCACGTGTGAGCTTTTTTCCGTAATT
1 TTTATCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATT
57367678 AATAGTTAAT
Statistics
Matches: 402, Mismatches: 31, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
125 116 0.29
126 286 0.71
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (126 bp):
TTTATCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTACTGAC
AGTGCATCCTTCTTGAAGCGTTTTTAACACTATTTGTTCAGAAACATCTTCTCAAAATTAT
Found at i:57367633 original size:251 final size:253
Alignment explanation
Indices: 57367118--57367677 Score: 894
Period size: 251 Copynumber: 2.2 Consensus size: 253
57367108 AGTTTAAGGC
* *
57367118 TTTA-TCAGATACTACTGTAGCAAAATAGCGTCCACGTGGGAGCTTTTTTCTGTAATTTTACTAA
1 TTTATTCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTACTAA
* * *
57367182 CAGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTATTCAGAAACATCTTCTTAAAATTATTTT
66 CAGTGCATCCTTCTTGAAACGTTTTTAACACTATTTATTCAGAAACATCTTCTCAAAATTATTTT
* * * *
57367247 ATCAGATACTACTGTAGCAAAAGAACGTTCACGTAGGAGCTTTTTTCCGTAATTTTACTGACAGT
131 ATCAGATACTACTGCAGCAAAAGAACGTCCACATAGGACCTTTTTTCCGTAATTTTACTGACAGT
* *
57367312 GCATCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTAT
196 GCATCCTTCTTGAAGCGTTTTTAACACTATTTGTTCAGAAACATATTCTCAAAATTAT
* * *
57367370 TTTATT-AGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCATAATTTTGCTGA
1 TTTATTCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTACTAA
* *
57367434 CAGTGCATCCTTCTTGAAACGTTTTTAACACTATTTGTTCAGAAACATCTTCTCAAATTTATTTT
66 CAGTGCATCCTTCTTGAAACGTTTTTAACACTATTTATTCAGAAACATCTTCTCAAAATTATTTT
* *
57367499 -TCAGATACTACTGCAGCAAAAGAGCGTCCACATGGGACCTTTTTTCCGTAATTTTACTGACAGT
131 ATCAGATACTACTGCAGCAAAAGAACGTCCACATAGGACCTTTTTTCCGTAATTTTACTGACAGT
* *
57367563 GCATCCTTCTTGAAGCGTTTTTAACACTATTTGTTCAGAAATATATTCTCAAATTTAT
196 GCATCCTTCTTGAAGCGTTTTTAACACTATTTGTTCAGAAACATATTCTCAAAATTAT
* *
57367621 TTT-TTCAGATACTACTGTAGCAAAAGAGCGTTCACGTGTGAGCTTTTTTCCGTAATT
1 TTTATTCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATT
57367678 AATAGTTAAT
Statistics
Matches: 283, Mismatches: 23, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
250 2 0.01
251 163 0.58
252 117 0.41
253 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (253 bp):
TTTATTCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTACTAA
CAGTGCATCCTTCTTGAAACGTTTTTAACACTATTTATTCAGAAACATCTTCTCAAAATTATTTT
ATCAGATACTACTGCAGCAAAAGAACGTCCACATAGGACCTTTTTTCCGTAATTTTACTGACAGT
GCATCCTTCTTGAAGCGTTTTTAACACTATTTGTTCAGAAACATATTCTCAAAATTAT
Found at i:57367930 original size:158 final size:159
Alignment explanation
Indices: 57367698--57368768 Score: 1633
Period size: 159 Copynumber: 6.8 Consensus size: 159
57367688 TTAATTAATA
* * *
57367698 AACTTTAAAAAACCCTAAACCCTAATTTAATTAATTTTTTTTAATTTCATAGTTAATTTAATTAA
1 AACTTTAAAAAACCTTAAACCCTAATTTAATTGATTTTTTTTATTTTCATAGTTAATTTAATTAA
* * * *
57367763 TTAACCCTCAACTCTAACTAAATTAATTTTTCCTTTAAAAAACACAAAAACCCTAAACTACTAAA
66 TTAACCCTCAACTCTAATTAAATTAATTTTTCCTTTAAAAAACACTAAAATCCTAAACCACTAAA
57367828 ACCCTAATCCTAAAACAATCAAAAACCCT
131 ACCCTAATCCTAAAACAATCAAAAACCCT
57367857 AACTTTAAAAAACCTTAAACCCTAATTTAATTGA-TTTTTTTATTTTCATAGTTAATTTAATTAA
1 AACTTTAAAAAACCTTAAACCCTAATTTAATTGATTTTTTTTATTTTCATAGTTAATTTAATTAA
* * *
57367921 TTAACCCTCAACTCTAATTAAATTAATTTTTCCTTTAAAAAATACAAAAATTCTAAACCACTAAA
66 TTAACCCTCAACTCTAATTAAATTAATTTTTCCTTTAAAAAACACTAAAATCCTAAACCACTAAA
57367986 ACCCTAATCCTAAAACAATCAAAAACCCT
131 ACCCTAATCCTAAAACAATCAAAAACCCT
*
57368015 AACTTTAAAAAACCCTAAACCCTAATTTAATTGATTTTTTTTATTTTCATAGTTAATTTAATTAA
1 AACTTTAAAAAACCTTAAACCCTAATTTAATTGATTTTTTTTATTTTCATAGTTAATTTAATTAA
* *
57368080 TTAACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAATCCAAAACCACTAAA
66 TTAACCCTCAACTCTAATTAAATTAATTTTTCCTTTAAAAAACACTAAAATCCTAAACCACTAAA
* * *
57368145 ACTCTGATCCTAAAACAATCAAAATCCCT
131 ACCCTAATCCTAAAACAATCAAAAACCCT
*
57368174 AACCTTAAAAAACCTTAAACCCTAATTTAATTGATTTTTTTTATTTTCATAGTTAATTTAATTAA
1 AACTTTAAAAAACCTTAAACCCTAATTTAATTGATTTTTTTTATTTTCATAGTTAATTTAATTAA
57368239 TTAACCCTCAACTCTAATTAAATTAATTTTTCC-TT-AAAAACACTAAAA-CCTTAAACCACTAA
66 TTAACCCTCAACTCTAATTAAATTAATTTTTCCTTTAAAAAACACTAAAATCC-TAAACCACTAA
* * **
57368301 AACCCTGATCCTAAAATAATCAAAAACTTT
130 AACCCTAATCCTAAAACAATCAAAAACCCT
* * * *
57368331 AA-TCATAAAAAACCTTAAACCCTAATTTAGTTAAGTTTTTTTATTTTCATAGTTAATTTAATTA
1 AACT-TTAAAAAACCTTAAACCCTAATTTAATTGATTTTTTTTATTTTCATAGTTAATTTAATTA
* * *
57368395 ATTAACCATCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAATCCAAAACCACTAA
65 ATTAACCCTCAACTCTAATTAAATTAATTTTTCCTTTAAAAAACACTAAAATCCTAAACCACTAA
* *
57368460 AACCCTGATCCTAAAACAATCAAAATCCCT
130 AACCCTAATCCTAAAACAATCAAAAACCCT
* *
57368490 AACCTTAAAAAACCTTAAACCCTAATTTAATTTA-TTTTTTTATTTTCATAGTTAATTTAATTAA
1 AACTTTAAAAAACCTTAAACCCTAATTTAATTGATTTTTTTTATTTTCATAGTTAATTTAATTAA
* * *
57368554 TTAACCCTTAACTCTAATTAAATTAATTTTTCCTTT-AAAAACACAAAAATTCTAAACCACTAAA
66 TTAACCCTCAACTCTAATTAAATTAATTTTTCCTTTAAAAAACACTAAAATCCTAAACCACTAAA
*
57368618 A-CCTCAATCCTAAAACAATCAAAAACCTT
131 ACCCT-AATCCTAAAACAATCAAAAACCCT
* * *
57368647 AACCTTAAAAAACCCTAAACCCTAATTTAATT-ATTTTTTTTATTTTTATAGTTAATTTAATTAA
1 AACTTTAAAAAACCTTAAACCCTAATTTAATTGATTTTTTTTATTTTCATAGTTAATTTAATTAA
* * * * *
57368711 TTAACCTTCAATTTTAATTAAATTAATTTTTTC-TTAAAAAATACTAAAA-CTCTAAACC
66 TTAACCCTCAACTCTAATTAAATTAATTTTTCCTTTAAAAAACACTAAAATC-CTAAACC
57368769 TTAAAAATTC
Statistics
Matches: 842, Mismatches: 59, Indels: 24
0.91 0.06 0.03
Matches are distributed among these distances:
156 8 0.01
157 292 0.35
158 218 0.26
159 322 0.38
160 2 0.00
ACGTcount: A:0.43, C:0.19, G:0.01, T:0.36
Consensus pattern (159 bp):
AACTTTAAAAAACCTTAAACCCTAATTTAATTGATTTTTTTTATTTTCATAGTTAATTTAATTAA
TTAACCCTCAACTCTAATTAAATTAATTTTTCCTTTAAAAAACACTAAAATCCTAAACCACTAAA
ACCCTAATCCTAAAACAATCAAAAACCCT
Found at i:57368417 original size:316 final size:315
Alignment explanation
Indices: 57367702--57368759 Score: 1730
Period size: 316 Copynumber: 3.4 Consensus size: 315
57367692 TTAATAAACT
*
57367702 TTAAAAAACCCTAAACCCTAATTTAATTAATTTTTTTTAATTTCATAGTTAATTTAATTAATTAA
1 TTAAAAAACCCTAAACCCTAATTTAATTAATTTTTTTTATTTTCATAGTTAATTTAATTAATTAA
* * * * * *
57367767 CCCTCAACTCTAACTAAATTAATTTTTCCTTTAAAAAACACAAAAACCCTAAACTACTAAAACCC
66 CCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAATCCAAAACCACTAAAACCC
* * *
57367832 TAATCCTAAAACAATCAAAAACCCTAACTTTAAAAAACCTTAAACCCTAATTTAATTGATTTTTT
131 TGATCCTAAAACAATCAAAATCCCTAACCTTAAAAAACCTTAAACCCTAATTTAATTGATTTTTT
57367897 TATTTTCATAGTTAATTTAATTAATTAACCCTCAACTCTAATTAAATTAATTTTTCCTTTAAAAA
196 TATTTTCATAGTTAATTTAATTAATTAACCCTCAACTCTAATTAAATTAATTTTTCCTTT-AAAA
* *
57367962 ATACAAAAATTCTAAACCACTAAAACCCTAATCCTAAAACAATCAAAAACCCTAAC
260 ACACAAAAATTCTAAACCACTAAAACCCTAATCCTAAAACAATCAAAAACCTTAAC
*
57368018 TTTAAAAAACCCTAAACCCTAATTTAATTGATTTTTTTTATTTTCATAGTTAATTTAATTAATTA
1 -TTAAAAAACCCTAAACCCTAATTTAATTAATTTTTTTTATTTTCATAGTTAATTTAATTAATTA
*
57368083 ACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAATCCAAAACCACTAAAACT
65 ACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAATCCAAAACCACTAAAACC
57368148 CTGATCCTAAAACAATCAAAATCCCTAACCTTAAAAAACCTTAAACCCTAATTTAATTGATTTTT
130 CTGATCCTAAAACAATCAAAATCCCTAACCTTAAAAAACCTTAAACCCTAATTTAATTGA-TTTT
57368213 TTTATTTTCATAGTTAATTTAATTAATTAACCCTCAACTCTAATTAAATTAATTTTTCC-TTAAA
194 TTTATTTTCATAGTTAATTTAATTAATTAACCCTCAACTCTAATTAAATTAATTTTTCCTTTAAA
* * * * *
57368277 AACACTAAAA-CCTTAAACCACTAAAACCCTGATCCTAAAATAATCAAAAACTTTAATC
259 AACACAAAAATTC-TAAACCACTAAAACCCTAATCCTAAAACAATCAAAAACCTTAA-C
* * * *
57368335 ATAAAAAACCTTAAACCCTAATTTAGTTAAGTTTTTTTATTTTCATAGTTAATTTAATTAATTAA
1 TTAAAAAACCCTAAACCCTAATTTAATTAATTTTTTTTATTTTCATAGTTAATTTAATTAATTAA
*
57368400 CCATCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAATCCAAAACCACTAAAACCC
66 CCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAATCCAAAACCACTAAAACCC
*
57368465 TGATCCTAAAACAATCAAAATCCCTAACCTTAAAAAACCTTAAACCCTAATTTAATTTATTTTTT
131 TGATCCTAAAACAATCAAAATCCCTAACCTTAAAAAACCTTAAACCCTAATTTAATTGATTTTTT
*
57368530 TATTTTCATAGTTAATTTAATTAATTAACCCTTAACTCTAATTAAATTAATTTTTCCTTTAAAAA
196 TATTTTCATAGTTAATTTAATTAATTAACCCTCAACTCTAATTAAATTAATTTTTCCTTTAAAAA
57368595 CACAAAAATTCTAAACCACTAAAA-CCTCAATCCTAAAACAATCAAAAACCTTAACC
261 CACAAAAATTCTAAACCACTAAAACCCT-AATCCTAAAACAATCAAAAACCTTAA-C
*
57368651 TTAAAAAACCCTAAACCCTAATTTAATT-ATTTTTTTTATTTTTATAGTTAATTTAATTAATTAA
1 TTAAAAAACCCTAAACCCTAATTTAATTAATTTTTTTTATTTTCATAGTTAATTTAATTAATTAA
* * * * *
57368715 CCTTCAATTTTAATTAAATTAATTTTT-TCTTAAAAAATACTAAAA
66 CCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAA
57368760 CTCTAAACCT
Statistics
Matches: 691, Mismatches: 44, Indels: 15
0.92 0.06 0.02
Matches are distributed among these distances:
314 16 0.02
315 124 0.18
316 307 0.44
317 181 0.26
318 63 0.09
ACGTcount: A:0.43, C:0.19, G:0.01, T:0.37
Consensus pattern (315 bp):
TTAAAAAACCCTAAACCCTAATTTAATTAATTTTTTTTATTTTCATAGTTAATTTAATTAATTAA
CCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAATCCAAAACCACTAAAACCC
TGATCCTAAAACAATCAAAATCCCTAACCTTAAAAAACCTTAAACCCTAATTTAATTGATTTTTT
TATTTTCATAGTTAATTTAATTAATTAACCCTCAACTCTAATTAAATTAATTTTTCCTTTAAAAA
CACAAAAATTCTAAACCACTAAAACCCTAATCCTAAAACAATCAAAAACCTTAAC
Found at i:57375347 original size:15 final size:15
Alignment explanation
Indices: 57375327--57375363 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
57375317 TTTGAAACTC
*
57375327 GTGGTGGTCTTGGAG
1 GTGGTGGTCTTGAAG
57375342 GTGGTGGTCTTGAAG
1 GTGGTGGTCTTGAAG
*
57375357 GGGGTGG
1 GTGGTGG
57375364 GGCACTAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.08, C:0.05, G:0.57, T:0.30
Consensus pattern (15 bp):
GTGGTGGTCTTGAAG
Found at i:57378143 original size:31 final size:30
Alignment explanation
Indices: 57378108--57378200 Score: 109
Period size: 31 Copynumber: 3.1 Consensus size: 30
57378098 TCTATTAAAA
* *
57378108 TAATTATTTTTATTTATAATAGTTTATATTT
1 TAATTATTTATATTTAAAATA-TTTATATTT
57378139 TAATTATTTATATTTAAAATA-TTATATTT
1 TAATTATTTATATTTAAAATATTTATATTT
* *
57378168 TAGTTACTTATA-TTAAAATATTATTATATTT
1 TAATTATTTATATTTAAAATA-T-TTATATTT
57378199 TA
1 TA
57378201 GTCACTACAT
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
28 8 0.15
29 18 0.33
31 29 0.53
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.59
Consensus pattern (30 bp):
TAATTATTTATATTTAAAATATTTATATTT
Found at i:57378148 original size:15 final size:15
Alignment explanation
Indices: 57378108--57378181 Score: 71
Period size: 15 Copynumber: 4.9 Consensus size: 15
57378098 TCTATTAAAA
*
57378108 TAATTATTTTTATTT
1 TAATTATTTATATTT
57378123 ATAA-TAGTTTATATTT
1 -TAATTA-TTTATATTT
57378139 TAATTATTTATATTT
1 TAATTATTTATATTT
* *
57378154 AAAATA-TTATATTT
1 TAATTATTTATATTT
* *
57378168 TAGTTACTTATATT
1 TAATTATTTATATT
57378182 AAAATATTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
14 11 0.22
15 25 0.51
16 13 0.27
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (15 bp):
TAATTATTTATATTT
Found at i:57378201 original size:31 final size:29
Alignment explanation
Indices: 57378131--57378202 Score: 99
Period size: 29 Copynumber: 2.4 Consensus size: 29
57378121 TTATAATAGT
* * *
57378131 TTATATTTTAATTATTTATATTTAAAATA
1 TTATATTTTAGTTACTTATATTAAAAATA
57378160 TTATATTTTAGTTACTTATATTAAAATATTA
1 TTATATTTTAGTTACTTATATTAAAA-A-TA
57378191 TTATATTTTAGT
1 TTATATTTTAGT
57378203 CACTACATCA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 23 0.61
30 1 0.03
31 14 0.37
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (29 bp):
TTATATTTTAGTTACTTATATTAAAAATA
Found at i:57381563 original size:23 final size:23
Alignment explanation
Indices: 57381537--57381595 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
57381527 ATAGACATGC
* *
57381537 GACGTCGCGACGAGAAGAGTTGT
1 GACGTCGCAACGAGAAGAATTGT
* **
57381560 GACGTCGCAATGAGGGGAATTGT
1 GACGTCGCAACGAGAAGAATTGT
57381583 GACGTCGCAACGA
1 GACGTCGCAACGA
57381596 TATCTTACCT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.27, C:0.19, G:0.37, T:0.17
Consensus pattern (23 bp):
GACGTCGCAACGAGAAGAATTGT
Found at i:57384826 original size:25 final size:25
Alignment explanation
Indices: 57384797--57384848 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
57384787 TAGAATAATT
*
57384797 TGAATATTTGATATTGCCTAATAAA
1 TGAATATCTGATATTGCCTAATAAA
* *
57384822 TGAATATCTGATATTGCTTAGTAAA
1 TGAATATCTGATATTGCCTAATAAA
57384847 TG
1 TG
57384849 TCAAGCCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.40
Consensus pattern (25 bp):
TGAATATCTGATATTGCCTAATAAA
Found at i:57385667 original size:31 final size:31
Alignment explanation
Indices: 57385603--57385667 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
57385593 ACAAATCTAG
* * *
57385603 TGACTTAAATAAAAACTTTTGAATAGTTTAA
1 TGACTTAAATAAAAACTTTTAAATAATTCAA
*
57385634 TGACTTAAATGAAAA-TTTTCAAATAATTCAA
1 TGACTTAAATAAAAACTTTT-AAATAATTCAA
57385665 TGA
1 TGA
57385668 TAAAATTGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 4 0.14
31 25 0.86
ACGTcount: A:0.46, C:0.08, G:0.09, T:0.37
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTTAAATAATTCAA
Found at i:57388209 original size:31 final size:32
Alignment explanation
Indices: 57388141--57388215 Score: 100
Period size: 31 Copynumber: 2.4 Consensus size: 32
57388131 CTTAACAATC
** *
57388141 TAATGACTTAAATAAAAAACTTTTGAATAGTT
1 TAATGACTTAAATAAAAAACTTTCAAATAATT
*
57388173 CAATGACTTAAAT-AAAAACTTTCAAATAATT
1 TAATGACTTAAATAAAAAACTTTCAAATAATT
57388204 TAATGAC-TAAAT
1 TAATGACTTAAAT
57388216 TGTAAATTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
30 5 0.13
31 21 0.55
32 12 0.32
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.35
Consensus pattern (32 bp):
TAATGACTTAAATAAAAAACTTTCAAATAATT
Found at i:57389561 original size:31 final size:31
Alignment explanation
Indices: 57389526--57389599 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
57389516 AAAAATTGTT
*
57389526 ATTTTAGTTATTCATATAAAATAAGTTGTCA
1 ATTTTAATTATTCATATAAAATAAGTTGTCA
* * * * *
57389557 ATTTTAATAACTCTTATGAAATAAGTTGTTA
1 ATTTTAATTATTCATATAAAATAAGTTGTCA
57389588 ATTTTAATTATT
1 ATTTTAATTATT
57389600 TTATTGTTAA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.49
Consensus pattern (31 bp):
ATTTTAATTATTCATATAAAATAAGTTGTCA
Found at i:57392924 original size:78 final size:76
Alignment explanation
Indices: 57392828--57393003 Score: 196
Period size: 76 Copynumber: 2.3 Consensus size: 76
57392818 TTTCTCGTGC
* *
57392828 CTCAATTCATAAC--A-TTTACATAGTTTGTTACAATGATTTAATTTAAAAGAAGAAAATATTGA
1 CTCAATTCATAACATATTTTACATAGTTTGTTACAATGATTCAATTT-AAAGAAAAAAAT-TTGA
*
57392890 ATTTGTGTCATGT
64 ATTTATGTCATGT
* * * * * * *
57392903 CTCAATTTATAATATATTTTACATAGTTTGTTATAGTGGTTCAGTTTAAAGAAAAAAATTTGTAT
1 CTCAATTCATAACATATTTTACATAGTTTGTTACAATGATTCAATTTAAAGAAAAAAATTTGAAT
* *
57392968 TTATTTGATGT
66 TTATGTCATGT
*
57392979 CTCAATTCATAACATATTTTGCATA
1 CTCAATTCATAACATATTTTACATA
57393004 ATTTATCGTA
Statistics
Matches: 83, Mismatches: 15, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
75 11 0.13
76 35 0.42
77 12 0.14
78 25 0.30
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.43
Consensus pattern (76 bp):
CTCAATTCATAACATATTTTACATAGTTTGTTACAATGATTCAATTTAAAGAAAAAAATTTGAAT
TTATGTCATGT
Found at i:57394793 original size:13 final size:13
Alignment explanation
Indices: 57394775--57394802 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
57394765 ACATATTATA
57394775 AATATTTTGTGTT
1 AATATTTTGTGTT
57394788 AATATTTTGTGTT
1 AATATTTTGTGTT
57394801 AA
1 AA
57394803 AAATAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (13 bp):
AATATTTTGTGTT
Found at i:57396269 original size:40 final size:40
Alignment explanation
Indices: 57396221--57396466 Score: 386
Period size: 40 Copynumber: 6.2 Consensus size: 40
57396211 GGACTAAGAT
57396221 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
57396261 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* *
57396301 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* * *
57396341 CCGAAGGCATTTGTGCGAGTTGCTATATCTGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* * *
57396381 CCGAAGGCATTTTTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* * *
57396421 CCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
57396460 CCGAAGG
1 CCGAAGG
57396467 TACTTGGGTT
Statistics
Matches: 187, Mismatches: 19, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
39 15 0.08
40 172 0.92
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
Found at i:57398662 original size:10 final size:10
Alignment explanation
Indices: 57398635--57398694 Score: 61
Period size: 10 Copynumber: 6.0 Consensus size: 10
57398625 TTAAATTCTA
57398635 AAAGATAAAT
1 AAAGATAAAT
*
57398645 ACAA-ATAAAC
1 A-AAGATAAAT
*
57398655 AAAGATAATT
1 AAAGATAAAT
*
57398665 AAAGATAATT
1 AAAGATAAAT
57398675 AAAGATAAAT
1 AAAGATAAAT
57398685 GAAA-ATAAAT
1 -AAAGATAAAT
57398695 CCTAAAATTA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
9 2 0.05
10 36 0.84
11 5 0.12
ACGTcount: A:0.67, C:0.03, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:57414150 original size:19 final size:19
Alignment explanation
Indices: 57414113--57414150 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
57414103 CATCATCGGT
*
57414113 CATAGGTAAAAACTGTGAC
1 CATAGGTAAAAACTCTGAC
57414132 CATA-GTAAAAACTACTGAC
1 CATAGGTAAAAACT-CTGAC
57414151 GCTAACACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.45, C:0.18, G:0.16, T:0.21
Consensus pattern (19 bp):
CATAGGTAAAAACTCTGAC
Found at i:57415004 original size:10 final size:10
Alignment explanation
Indices: 57414989--57415022 Score: 59
Period size: 10 Copynumber: 3.3 Consensus size: 10
57414979 ATACATAAAT
57414989 AGATACAACG
1 AGATACAACG
57414999 AGATACAACG
1 AGATACAACG
57415009 AGATACAACTG
1 AGATACAAC-G
57415020 AGA
1 AGA
57415023 AACACAGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 19 0.83
11 4 0.17
ACGTcount: A:0.50, C:0.18, G:0.21, T:0.12
Consensus pattern (10 bp):
AGATACAACG
Found at i:57416389 original size:15 final size:18
Alignment explanation
Indices: 57416356--57416395 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
57416346 TAAATTTATT
57416356 TTATAATAAGATGATATA
1 TTATAATAAGATGATATA
* *
57416374 TTATAATAA-ATAATATC
1 TTATAATAAGATGATATA
57416391 TTATA
1 TTATA
57416396 TAGACCTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (18 bp):
TTATAATAAGATGATATA
Found at i:57416550 original size:13 final size:13
Alignment explanation
Indices: 57416526--57416568 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
57416516 AAACAAATAT
57416526 TATATT-TATTAA
1 TATATTATATTAA
57416538 TATATTATATTAA
1 TATATTATATTAA
*
57416551 AATATCTATATTTAA
1 TATAT-TATA-TTAA
57416566 TAT
1 TAT
57416569 TACAAAACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 6 0.23
13 10 0.38
14 4 0.15
15 6 0.23
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (13 bp):
TATATTATATTAA
Found at i:57416706 original size:18 final size:19
Alignment explanation
Indices: 57416683--57416718 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
57416673 TTATTAATGT
*
57416683 TAAAA-TTTATTATTAAAA
1 TAAAATTTTAATATTAAAA
57416701 TAAAATTTTAATATTAAA
1 TAAAATTTTAATATTAAA
57416719 TTATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
TAAAATTTTAATATTAAAA
Found at i:57416746 original size:9 final size:9
Alignment explanation
Indices: 57416724--57416756 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
57416714 TTAAATTATT
57416724 TATTAA-AA
1 TATTAAGAA
57416732 TAATTAAGAA
1 T-ATTAAGAA
57416742 TATTAAGAA
1 TATTAAGAA
57416751 TATTAA
1 TATTAA
57416757 TGATTTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 1 0.04
9 19 0.83
10 3 0.13
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (9 bp):
TATTAAGAA
Found at i:57417873 original size:28 final size:27
Alignment explanation
Indices: 57417832--57417939 Score: 126
Period size: 28 Copynumber: 3.9 Consensus size: 27
57417822 AATATGGTCA
* * *
57417832 TTGGAATTTGACTGTTACAATATGATCG
1 TTGGAATCTAACTGTTGCAATATGA-CG
* *
57417860 TTGAAATCTAACTGTTGCAATATGACTA
1 TTGGAATCTAACTGTTGCAATATGAC-G
*
57417888 TTGGAATTTAACTGTTGCAATATGAACG
1 TTGGAATCTAACTGTTGCAATATG-ACG
*
57417916 TTGGAATCTAACCGTTGCAATATG
1 TTGGAATCTAACTGTTGCAATATG
57417940 GCCATTGAAT
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
27 1 0.01
28 65 0.96
29 2 0.03
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.36
Consensus pattern (27 bp):
TTGGAATCTAACTGTTGCAATATGACG
Found at i:57417892 original size:56 final size:56
Alignment explanation
Indices: 57417831--57417939 Score: 173
Period size: 56 Copynumber: 1.9 Consensus size: 56
57417821 AAATATGGTC
* * *
57417831 ATTGGAATTTGACTGTTACAATATGATCGTTGAAATCTAACTGTTGCAATATGACT
1 ATTGGAATTTAACTGTTACAATATGAACGTTGAAATCTAACCGTTGCAATATGACT
* *
57417887 ATTGGAATTTAACTGTTGCAATATGAACGTTGGAATCTAACCGTTGCAATATG
1 ATTGGAATTTAACTGTTACAATATGAACGTTGAAATCTAACCGTTGCAATATG
57417940 GCCATTGAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 48 1.00
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (56 bp):
ATTGGAATTTAACTGTTACAATATGAACGTTGAAATCTAACCGTTGCAATATGACT
Found at i:57418799 original size:23 final size:23
Alignment explanation
Indices: 57418734--57418803 Score: 104
Period size: 23 Copynumber: 3.0 Consensus size: 23
57418724 AAAATTTTGA
* *
57418734 ATTATTTAGTGATAATATTCAGA
1 ATTATTTAGTGATAATATTTAGG
57418757 ATTATTTAGTGATAATATTTAGG
1 ATTATTTAGTGATAATATTTAGG
* *
57418780 ATTATATAATGATAATATTTAGG
1 ATTATTTAGTGATAATATTTAGG
57418803 A
1 A
57418804 AAAATCTAGT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.40, C:0.01, G:0.14, T:0.44
Consensus pattern (23 bp):
ATTATTTAGTGATAATATTTAGG
Found at i:57419636 original size:32 final size:31
Alignment explanation
Indices: 57419600--57419659 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
57419590 CCATTTATTT
57419600 TATTTTCTTAAATTTATTTTTGCAT-TTTTGAA
1 TATTTT-TTAAATTTATTTTT-CATATTTTGAA
* *
57419632 TATTTTTTTATTTTATTTTTCATATTTT
1 TATTTTTTAAATTTATTTTTCATATTTT
57419660 ATTTTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 3 0.12
31 16 0.64
32 6 0.24
ACGTcount: A:0.22, C:0.05, G:0.03, T:0.70
Consensus pattern (31 bp):
TATTTTTTAAATTTATTTTTCATATTTTGAA
Found at i:57419650 original size:22 final size:22
Alignment explanation
Indices: 57419625--57419670 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
57419615 ATTTTTGCAT
57419625 TTTTGAATATTTT-TTTATTTTA
1 TTTTGAATATTTTATTT-TTTTA
**
57419647 TTTTTCATATTTTATTTTTTTA
1 TTTTGAATATTTTATTTTTTTA
57419669 TT
1 TT
57419671 ATCTTAATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (22 bp):
TTTTGAATATTTTATTTTTTTA
Found at i:57424081 original size:2 final size:2
Alignment explanation
Indices: 57424074--57424104 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
57424064 ATTCCTAAAC
57424074 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 A
57424105 AATGAAAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:57425754 original size:18 final size:18
Alignment explanation
Indices: 57425731--57425767 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
57425721 TCAAAACCGG
57425731 TCGGTTAACCGAAAAAAT
1 TCGGTTAACCGAAAAAAT
57425749 TCGGTTAACCGAAAAAAT
1 TCGGTTAACCGAAAAAAT
57425767 T
1 T
57425768 AATAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.24
Consensus pattern (18 bp):
TCGGTTAACCGAAAAAAT
Found at i:57425886 original size:13 final size:13
Alignment explanation
Indices: 57425868--57425892 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57425858 CAAGTACCCA
57425868 ACCCAACCCAATT
1 ACCCAACCCAATT
57425881 ACCCAACCCAAT
1 ACCCAACCCAAT
57425893 CATAAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:57425958 original size:20 final size:20
Alignment explanation
Indices: 57425921--57425959 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
57425911 TTTAATAAAT
**
57425921 AAAAATAAAAATCTAAAACG
1 AAAAATAAAAATAAAAAACG
57425941 AAAAATAAAAATAAAAAAC
1 AAAAATAAAAATAAAAAAC
57425960 ATATAATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.77, C:0.08, G:0.03, T:0.13
Consensus pattern (20 bp):
AAAAATAAAAATAAAAAACG
Found at i:57426045 original size:9 final size:9
Alignment explanation
Indices: 57425977--57426044 Score: 93
Period size: 9 Copynumber: 7.6 Consensus size: 9
57425967 TTTATACAAA
57425977 TAATTCGGT
1 TAATTCGGT
57425986 TAATTCGGT
1 TAATTCGGT
*
57425995 TAATTTTGG-
1 TAA-TTCGGT
57426004 TAATTCGGT
1 TAATTCGGT
*
57426013 TAATTCGAT
1 TAATTCGGT
57426022 TAATTCGGT
1 TAATTCGGT
*
57426031 TAATTTGGT
1 TAATTCGGT
57426040 TAATT
1 TAATT
57426045 TTATACTTAT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
8 4 0.08
9 44 0.85
10 4 0.08
ACGTcount: A:0.25, C:0.07, G:0.19, T:0.49
Consensus pattern (9 bp):
TAATTCGGT
Found at i:57432470 original size:20 final size:20
Alignment explanation
Indices: 57432447--57432544 Score: 99
Period size: 20 Copynumber: 5.0 Consensus size: 20
57432437 TTTTTATCGT
*
57432447 AATATCAAAATCTCTAATGC
1 AATATCAAAATTTCTAATGC
* *
57432467 AATATCAATATTTTTAATGC
1 AATATCAAAATTTCTAATGC
** *
57432487 AATGCCAAAATTTTTAATG-
1 AATATCAAAATTTCTAATGC
* * *
57432506 GATACCAATATTTCTAATGC
1 AATATCAAAATTTCTAATGC
*
57432526 AATATTAAAATTTCTAATG
1 AATATCAAAATTTCTAATG
57432545 GATACCACTT
Statistics
Matches: 63, Mismatches: 14, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
19 15 0.24
20 48 0.76
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.38
Consensus pattern (20 bp):
AATATCAAAATTTCTAATGC
Found at i:57432513 original size:19 final size:19
Alignment explanation
Indices: 57432476--57432580 Score: 68
Period size: 19 Copynumber: 5.4 Consensus size: 19
57432466 CAATATCAAT
* *
57432476 ATTTTTAATGCAATGCCAAA
1 ATTTTTAATG-GATACCAAA
*
57432496 ATTTTTAATGGATACCAAT
1 ATTTTTAATGGATACCAAA
* * **
57432515 ATTTCTAATGCAATATTAAA
1 ATTTTTAATG-GATACCAAA
* *
57432535 ATTTCTAATGGATACC-AC
1 ATTTTTAATGGATACCAAA
* **
57432553 TTTTTCTAACAGATACCAAA
1 ATTTT-TAATGGATACCAAA
57432573 ATTTTTAA
1 ATTTTTAA
57432581 GAGCATCTTG
Statistics
Matches: 64, Mismatches: 18, Indels: 7
0.72 0.20 0.08
Matches are distributed among these distances:
18 4 0.06
19 30 0.47
20 30 0.47
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.39
Consensus pattern (19 bp):
ATTTTTAATGGATACCAAA
Found at i:57432524 original size:39 final size:39
Alignment explanation
Indices: 57432472--57432580 Score: 132
Period size: 39 Copynumber: 2.8 Consensus size: 39
57432462 AATGCAATAT
* *
57432472 CAATATTTTTAATGCAATGCCAAAATTTTTAATGGATAC
1 CAATATTTCTAATGCAATACCAAAATTTTTAATGGATAC
** *
57432511 CAATATTTCTAATGCAATATTAAAATTTCTAATGGATAC
1 CAATATTTCTAATGCAATACCAAAATTTTTAATGGATAC
* *
57432550 CACTTTTTCTAA--CAGATACCAAAATTTTTAA
1 CAATATTTCTAATGCA-ATACCAAAATTTTTAA
57432581 GAGCATCTTG
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
37 2 0.03
38 13 0.22
39 44 0.75
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (39 bp):
CAATATTTCTAATGCAATACCAAAATTTTTAATGGATAC
Found at i:57433525 original size:20 final size:20
Alignment explanation
Indices: 57433462--57433573 Score: 75
Period size: 20 Copynumber: 5.7 Consensus size: 20
57433452 AGAGAACATT
**
57433462 AAATTTTGGTATTACGTTAC
1 AAATTTTGGTATTTGGTTAC
* * *
57433482 ATATATTGGTATTTGGTGT-G
1 AAATTTTGGTATTTGGT-TAC
*
57433502 AAATTTTTGTATTTGGTTAC
1 AAATTTTGGTATTTGGTTAC
* *** *
57433522 AAATTCTGGT-TTCCATTAG
1 AAATTTTGGTATTTGGTTAC
* * *
57433541 AAATTTTGTTATTTGATTAG
1 AAATTTTGGTATTTGGTTAC
57433561 AAATTTTGGTATT
1 AAATTTTGGTATT
57433574 GTTGGAAAAA
Statistics
Matches: 69, Mismatches: 20, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
19 14 0.20
20 54 0.78
21 1 0.01
ACGTcount: A:0.27, C:0.05, G:0.18, T:0.50
Consensus pattern (20 bp):
AAATTTTGGTATTTGGTTAC
Found at i:57434286 original size:16 final size:17
Alignment explanation
Indices: 57434265--57434299 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
57434255 AATTAAATAA
*
57434265 AATTAATTAA-TTTCTC
1 AATTAAATAATTTTCTC
57434281 AATTAAATAATTTTCTC
1 AATTAAATAATTTTCTC
57434298 AA
1 AA
57434300 CCTAATTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (17 bp):
AATTAAATAATTTTCTC
Found at i:57434916 original size:17 final size:17
Alignment explanation
Indices: 57434887--57434919 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
57434877 CTTTTGTTTG
57434887 CTTTTCTTTTTCTTTTT
1 CTTTTCTTTTTCTTTTT
57434904 CTTTT-TTTCTTCTTTT
1 CTTTTCTTT-TTCTTTT
57434920 GGGAAACGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (17 bp):
CTTTTCTTTTTCTTTTT
Found at i:57441080 original size:33 final size:33
Alignment explanation
Indices: 57441038--57441102 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
57441028 CAGGAGTATG
*
57441038 TTTTTGACGTGGGTCTACAAAATATCAGATCTA
1 TTTTTGACGTGGGTCCACAAAATATCAGATCTA
57441071 TTTTTGACGTGGGTCCACAAAATATCAGATCT
1 TTTTTGACGTGGGTCCACAAAATATCAGATCT
57441103 GGGAGTGTCC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.35
Consensus pattern (33 bp):
TTTTTGACGTGGGTCCACAAAATATCAGATCTA
Found at i:57442427 original size:20 final size:20
Alignment explanation
Indices: 57442402--57442448 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
57442392 TGTGCCTTCT
*
57442402 CCTACACGAGCTTGTTGACC
1 CCTACACGAGCGTGTTGACC
* *
57442422 CCTACATGTGCGTGTTGACC
1 CCTACACGAGCGTGTTGACC
*
57442442 CCCACAC
1 CCTACAC
57442449 AACCTAGGCA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.19, C:0.38, G:0.19, T:0.23
Consensus pattern (20 bp):
CCTACACGAGCGTGTTGACC
Found at i:57446030 original size:6 final size:6
Alignment explanation
Indices: 57446021--57446098 Score: 83
Period size: 6 Copynumber: 13.5 Consensus size: 6
57446011 TATAAATTTA
* * *
57446021 AAAAAT -AAAAT AAAAA- ACAAAT AACAAT AAAAAT AAAAGT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
*
57446067 AAAAAT AAAAAT --AAAT AAAACAT AAAACT AAA
1 AAAAAT AAAAAT AAAAAT AAAA-AT AAAAAT AAA
57446099 TGAAATCACT
Statistics
Matches: 60, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
4 4 0.07
5 9 0.15
6 41 0.68
7 6 0.10
ACGTcount: A:0.78, C:0.05, G:0.01, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:57446036 original size:12 final size:12
Alignment explanation
Indices: 57445997--57446098 Score: 59
Period size: 12 Copynumber: 7.9 Consensus size: 12
57445987 GAAAGTGCAT
57445997 AATAAAATAAAA
1 AATAAAATAAAA
*
57446009 CATATAAATTTAAAA
1 -A-ATAAA-ATAAAA
57446024 AATAAAATAAAAAACA
1 AATAAAAT---AAA-A
57446040 AATAACAAT-AAA
1 AATAA-AATAAAA
57446052 AATAAAAGT-AAA
1 AATAAAA-TAAAA
57446064 AATAAAA-ATAAA
1 AATAAAATA-AAA
57446076 AAT-AAATAAAA
1 AATAAAATAAAA
*
57446087 CATAAAACTAAA
1 AATAAAA-TAAA
57446099 TGAAATCACT
Statistics
Matches: 73, Mismatches: 3, Indels: 26
0.72 0.03 0.25
Matches are distributed among these distances:
11 10 0.14
12 28 0.38
13 12 0.16
14 6 0.08
15 8 0.11
16 6 0.08
17 3 0.04
ACGTcount: A:0.75, C:0.05, G:0.01, T:0.19
Consensus pattern (12 bp):
AATAAAATAAAA
Found at i:57446057 original size:41 final size:41
Alignment explanation
Indices: 57446012--57446100 Score: 101
Period size: 41 Copynumber: 2.2 Consensus size: 41
57446002 AATAAAACAT
* *
57446012 ATAAATTTAAAAA-ATAAAATAAAAAACAAATAACA-ATAAAA
1 ATAAATGTAAAAATA-AAAAT-AAAAACAAATAAAACATAAAA
* *
57446053 ATAAAAGTAAAAATAAAAATAAAAATAAATAAAACATAAAA
1 ATAAATGTAAAAATAAAAATAAAAACAAATAAAACATAAAA
*
57446094 CTAAATG
1 ATAAATG
57446101 AAATCACTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
40 12 0.30
41 27 0.68
42 1 0.03
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.19
Consensus pattern (41 bp):
ATAAATGTAAAAATAAAAATAAAAACAAATAAAACATAAAA
Found at i:57446093 original size:17 final size:16
Alignment explanation
Indices: 57446021--57446099 Score: 70
Period size: 17 Copynumber: 4.6 Consensus size: 16
57446011 TATAAATTTA
57446021 AAAAATAAAATAAAAA-
1 AAAAAT-AAATAAAAAT
*
57446037 ACAAATAACAATAAAAAT
1 AAAAAT-A-AATAAAAAT
*
57446055 AAAAGTAAAAATAAAAAT
1 AAAA--ATAAATAAAAAT
57446073 AAAAATAAATAAAACAT
1 AAAAATAAATAAAA-AT
*
57446090 AAAACTAAAT
1 AAAAATAAAT
57446100 GAAATCACTT
Statistics
Matches: 53, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
16 16 0.30
17 19 0.36
18 16 0.30
19 1 0.02
20 1 0.02
ACGTcount: A:0.77, C:0.05, G:0.01, T:0.16
Consensus pattern (16 bp):
AAAAATAAATAAAAAT
Found at i:57449635 original size:49 final size:49
Alignment explanation
Indices: 57449561--57449818 Score: 444
Period size: 49 Copynumber: 5.2 Consensus size: 49
57449551 ATGTATGAGA
*
57449561 TATATATATGTGATAAGGCCAAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
57449610 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTA
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAA-GTG
57449661 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
57449710 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTA
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAA-GTG
*
57449761 TATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
57449810 TATATATAT
1 TATATATAT
57449819 ATGTGGTAAA
Statistics
Matches: 199, Mismatches: 6, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
49 98 0.49
50 12 0.06
51 89 0.45
ACGTcount: A:0.34, C:0.08, G:0.26, T:0.31
Consensus pattern (49 bp):
TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:57449667 original size:51 final size:51
Alignment explanation
Indices: 57449560--57449838 Score: 458
Period size: 51 Copynumber: 5.5 Consensus size: 51
57449550 TATGTATGAG
*
57449560 ATATATATATGTGATAAGGCCAAATGGCCGATGTGATGAATGTG-AAA-GT
1 ATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGT
*
57449609 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGT
1 ATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGT
57449660 ATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAA-GT
1 ATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGT
*
57449709 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGT
1 ATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGT
* *
57449760 ATATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGT
1 ATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGT
* * *
57449811 ATATATATATGTGGTAAAGCCGAATGGC
1 ATATATATATGTGATAAGGCCTAATGGC
57449839 TAATGTGAAT
Statistics
Matches: 216, Mismatches: 10, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
49 87 0.40
50 9 0.04
51 120 0.56
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.30
Consensus pattern (51 bp):
ATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGT
Found at i:57449668 original size:100 final size:100
Alignment explanation
Indices: 57449560--57449818 Score: 500
Period size: 100 Copynumber: 2.6 Consensus size: 100
57449550 TATGTATGAG
*
57449560 ATATATATATGTGATAAGGCCAAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATA
1 ATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATA
57449625 AGGCCTAATGGCCGATGTGATGAATGTGAAAATGT
66 AGGCCTAATGGCCGATGTGATGAATGTGAAAATGT
57449660 ATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATA
1 ATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATA
57449725 AGGCCTAATGGCCGATGTGATGAATGTGAAAATGT
66 AGGCCTAATGGCCGATGTGATGAATGTGAAAATGT
*
57449760 ATATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATAT
1 ATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATAT
57449819 ATGTGGTAAA
Statistics
Matches: 157, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 157 1.00
ACGTcount: A:0.35, C:0.08, G:0.26, T:0.31
Consensus pattern (100 bp):
ATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATA
AGGCCTAATGGCCGATGTGATGAATGTGAAAATGT
Found at i:57449942 original size:37 final size:36
Alignment explanation
Indices: 57449887--57449973 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
57449877 AACTTGGAAA
57449887 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
57449925 TATGTCCGGGTATGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
57449962 TATGTCCGGGTA
1 TATGTCCGGGTA
57449974 AGACTTCGCA
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 43 0.90
38 4 0.08
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.28
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:57451666 original size:17 final size:17
Alignment explanation
Indices: 57451644--57451677 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
57451634 TTATTACTTC
*
57451644 ACCAAAGAGTTTCTTTA
1 ACCAAAGAGCTTCTTTA
*
57451661 ACCAAATAGCTTCTTTA
1 ACCAAAGAGCTTCTTTA
57451678 CAAGCCTTAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (17 bp):
ACCAAAGAGCTTCTTTA
Found at i:57456164 original size:56 final size:56
Alignment explanation
Indices: 57456078--57456186 Score: 146
Period size: 56 Copynumber: 1.9 Consensus size: 56
57456068 ATCTATTTGT
* * *
57456078 ATTTCAAATTTATTTACTTTTGCCTTCTGTTTTGATGTGCTCCTGATATATAGAAG
1 ATTTCAAATTTATTTACTCTTGCCTTCTGTTTTGATATACTCCTGATATATAGAAG
* * ** *
57456134 ATTTCAAATTTCTTTGCTCTTGTTTTCTGTTTTGATATACTCTTGATATATAG
1 ATTTCAAATTTATTTACTCTTGCCTTCTGTTTTGATATACTCCTGATATATAG
57456187 GAATTAGTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
56 45 1.00
ACGTcount: A:0.22, C:0.14, G:0.13, T:0.51
Consensus pattern (56 bp):
ATTTCAAATTTATTTACTCTTGCCTTCTGTTTTGATATACTCCTGATATATAGAAG
Found at i:57457759 original size:92 final size:92
Alignment explanation
Indices: 57457643--57457969 Score: 343
Period size: 92 Copynumber: 3.6 Consensus size: 92
57457633 AGTCATTGTA
57457643 TTTTTTTTACACTCAATTGGGTACTTGAACTTTCAAAATGCATAAAAAATGCCATCAAACTTTTT
1 TTTTTTTTACACTCAATTGGGTACTTGAACTTTCAAAATGCATAAAAAA-GCC-TCAAACTTTTT
*
57457708 -TAAAAG-AA-CAATTAAGCCCTTGCTTTT
64 AAAAAAGAAAGCAATTAAGCCCTTGC-TTT
* *
57457735 TTTTTTTTACACTCAATTGGGTACTTCAACTTTCAAAATGTATAAAAAAGGCCTCAAACTTTTTC
1 TTTTTTTTACACTCAATTGGGTACTTGAACTTTCAAAATGCATAAAAAA-GCCTCAAACTTTTT-
57457800 AAAAAAGAAAAGCAATTAAGCCCTTGCTTT
64 AAAAAAG-AAAGCAATTAAGCCCTTGCTTT
* * * *
57457830 TTTTTTTT-CACACAATTAGGTACTTGAACATTCAAAATGCATTAAAAAGACCCTCAAACTTTTT
1 TTTTTTTTACACTCAATTGGGTACTTGAACTTTCAAAATGCA-TAAAAA-AGCCTCAAACTTTTT
* * **
57457894 --CAAACAAAGC-ATTAAGCTCC-TG--AA
64 AAAAAAGAAAGCAATTAAGC-CCTTGCTTT
* ** * *
57457918 TTTTTTTTGCACTCAATTGGCAACTTGAACTATC-AAATGTATCAAAAAAGCC
1 TTTTTTTTACACTCAATTGGGTACTTGAACTTTCAAAATGCAT-AAAAAAGCC
57457970 CTTTGGCCAT
Statistics
Matches: 203, Mismatches: 22, Indels: 25
0.81 0.09 0.10
Matches are distributed among these distances:
87 4 0.02
88 19 0.09
89 19 0.09
90 9 0.04
91 18 0.09
92 53 0.26
93 5 0.02
94 28 0.14
95 32 0.16
96 16 0.08
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.35
Consensus pattern (92 bp):
TTTTTTTTACACTCAATTGGGTACTTGAACTTTCAAAATGCATAAAAAAGCCTCAAACTTTTTAA
AAAAGAAAGCAATTAAGCCCTTGCTTT
Found at i:57458110 original size:19 final size:20
Alignment explanation
Indices: 57458087--57458134 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
57458077 ATTCGAAAAA
57458087 AATAAAAATCAATAAAATTT
1 AATAAAAATCAATAAAATTT
* * * *
57458107 -ATAAGAATTATTAAATTTT
1 AATAAAAATCAATAAAATTT
57458126 AATAAAAAT
1 AATAAAAAT
57458135 ATAAAAATAT
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (20 bp):
AATAAAAATCAATAAAATTT
Found at i:57458518 original size:19 final size:17
Alignment explanation
Indices: 57458494--57458584 Score: 76
Period size: 19 Copynumber: 4.9 Consensus size: 17
57458484 ATTGGTCTAT
*
57458494 ATTTCTATATATTTTATA
1 ATTTTTATAT-TTTTATA
*
57458512 ATATTCTATGATTTTTAT-
1 AT-TTTTAT-ATTTTTATA
*
57458530 ATGATTTTACAATTTTTTATA
1 AT--TTTTA-TA-TTTTTATA
57458551 ATTTTTATGATTTTTATA
1 ATTTTTAT-ATTTTTATA
57458569 ATTTTTATATTTTTAT
1 ATTTTTATATTTTTAT
57458585 TAAAATTTAA
Statistics
Matches: 63, Mismatches: 3, Indels: 15
0.78 0.04 0.19
Matches are distributed among these distances:
17 8 0.13
18 20 0.32
19 24 0.38
20 9 0.14
21 2 0.03
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (17 bp):
ATTTTTATATTTTTATA
Found at i:57458555 original size:9 final size:9
Alignment explanation
Indices: 57458505--57458584 Score: 74
Period size: 9 Copynumber: 8.7 Consensus size: 9
57458495 TTTCTATATA
57458505 TTTTATAAT
1 TTTTATAAT
* *
57458514 ATTCTATGAT
1 -TTTTATAAT
57458524 TTTTAT-AT
1 TTTTATAAT
*
57458532 GATTTTACAATT
1 --TTTTATAA-T
57458544 TTTTATAAT
1 TTTTATAAT
*
57458553 TTTTATGAT
1 TTTTATAAT
57458562 TTTTATAAT
1 TTTTATAAT
57458571 TTTTAT-AT
1 TTTTATAAT
57458579 TTTTAT
1 TTTTAT
57458585 TAAAATTTAA
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
8 10 0.17
9 28 0.47
10 19 0.32
11 1 0.02
12 1 0.02
ACGTcount: A:0.29, C:0.03, G:0.04, T:0.65
Consensus pattern (9 bp):
TTTTATAAT
Found at i:57458564 original size:18 final size:18
Alignment explanation
Indices: 57458505--57458636 Score: 85
Period size: 18 Copynumber: 7.2 Consensus size: 18
57458495 TTTCTATATA
*
57458505 TTTTATAATATTCTATGAT
1 TTTTATAAT-TTTTATGAT
**
57458524 TTTTAT-ATGATTTTACAATT
1 TTTTATAAT--TTTTATGA-T
57458544 TTTTATAATTTTTATGAT
1 TTTTATAATTTTTATGAT
57458562 TTTTATAATTTTTAT-AT
1 TTTTATAATTTTTATGAT
* * *
57458579 TTTTATTAAAATTTAATCAT
1 TTTTA-T-AATTTTTATGAT
* *
57458599 ATTTATAACTTTTATTG-T
1 TTTTATAATTTTTA-TGAT
*
57458617 TTTT-T-ATTTTTATCAT
1 TTTTATAATTTTTATGAT
57458633 TTTT
1 TTTT
57458637 TTTGCCAAAT
Statistics
Matches: 91, Mismatches: 14, Indels: 19
0.73 0.11 0.15
Matches are distributed among these distances:
15 1 0.01
16 11 0.12
17 8 0.09
18 29 0.32
19 27 0.30
20 13 0.14
21 2 0.02
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.64
Consensus pattern (18 bp):
TTTTATAATTTTTATGAT
Done.