Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 149 of 356
Found at i:47954832 original size:143 final size:143
Alignment explanation
Indices: 47954616--47955052 Score: 693
Period size: 143 Copynumber: 3.1 Consensus size: 143
47954606 CCCTTCGGGA
* * * * * *
47954616 CTTATCACAT-T-TATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
**
47954679 ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACACTTTCACATTCATCACA
*
47954744 TCGGCCATTAAGC
131 TCGGCCATTAGGC
* * * *
47954757 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCGCACATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
*
47954822 ACTTTCACATTCATCACATCGACCATTAAGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCAC--ATATATACACTTTCACATTCATCA
47954887 CATCGGCCATTAGGC
129 CATCGGCCATTAGGC
47954902 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATTCACATATATA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTA-TCACATATATA
47954965 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACACTTTCACATTCATCAC
65 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACACTTTCACATTCATCAC
47955030 ATCGGCCATTAGGC
130 ATCGGCCATTAGGC
47955044 CTTATCACA
1 CTTATCACA
47955053 ATTTAGAATT
Statistics
Matches: 271, Mismatches: 19, Indels: 10
0.90 0.06 0.03
Matches are distributed among these distances:
141 10 0.04
142 48 0.18
143 121 0.45
144 48 0.18
145 44 0.16
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.32
Consensus pattern (143 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:47958226 original size:13 final size:13
Alignment explanation
Indices: 47958208--47958236 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
47958198 CAACAATTTG
47958208 AAGTCACATGGCC
1 AAGTCACATGGCC
47958221 AAGTCACATGGCC
1 AAGTCACATGGCC
47958234 AAG
1 AAG
47958237 GCCGTGTCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.34, C:0.28, G:0.24, T:0.14
Consensus pattern (13 bp):
AAGTCACATGGCC
Found at i:47971561 original size:16 final size:15
Alignment explanation
Indices: 47971523--47971561 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
47971513 TGGATTTTCG
*
47971523 TATCATGGATTTCTT
1 TATCTTGGATTTCTT
47971538 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
47971553 TATTCTTGG
1 TA-TCTTGG
47971562 CTTCTTTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.15, C:0.13, G:0.15, T:0.56
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:47974389 original size:49 final size:49
Alignment explanation
Indices: 47974312--47974406 Score: 154
Period size: 49 Copynumber: 1.9 Consensus size: 49
47974302 GCTATTGTGA
* *
47974312 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGAGTACCAGATAATT
* *
47974361 GGTCACATGTGTAGTACTAAGTGTAGGCTACTATGAGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGAGTACCAGATA
47974407 GCTTCGGCTA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.28
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGAGTACCAGATAATT
Found at i:47977698 original size:41 final size:42
Alignment explanation
Indices: 47977566--47977761 Score: 234
Period size: 42 Copynumber: 4.7 Consensus size: 42
47977556 TACCATACAA
* *
47977566 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
*
47977608 ATGCCAATAGT-CCAGCTATGGTCTTACACGAAATCTCATATCG
1 ATGCC-ATA-TCCCAGATATGGTCTTACACGAAATCTCATATCG
* * *
47977651 ATGCCATATCCCAAATATGGTCTTACAC-AATTCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * *
47977692 ATGCCATGTCCCAGACATGGTCTTACACGAAATCTCATAACG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * * **
47977734 ATGTCATATACAAGATATCATCTTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
47977762 ATAAAATCAT
Statistics
Matches: 130, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
41 37 0.28
42 55 0.42
43 37 0.28
44 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
Found at i:47977736 original size:83 final size:84
Alignment explanation
Indices: 47977566--47977742 Score: 245
Period size: 83 Copynumber: 2.1 Consensus size: 84
47977556 TACCATACAA
* *
47977566 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCATATCGATGCCAATAGTCCAGCTATGGTC
1 ATGCCATATCCCAAATATGGTCTTACA-GCAATCTCATATCGATGCCAATAGTCCAGCTATGGTC
*
47977631 TTACACGAAATCTCATATCG
65 TTACACGAAATCTCATAACG
*
47977651 ATGCCATATCCCAAATATGGTCTTACA-CAATTCTCATATTGATGCC-AT-GTCCCAGAC-ATGG
1 ATGCCATATCCCAAATATGGTCTTACAGCAA-TCTCATATCGATGCCAATAGT-CCAG-CTATGG
47977712 TCTTACACGAAATCTCATAACG
63 TCTTACACGAAATCTCATAACG
*
47977734 ATGTCATAT
1 ATGCCATAT
47977743 ACAAGATATC
Statistics
Matches: 84, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
82 2 0.02
83 41 0.49
84 15 0.18
85 26 0.31
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.31
Consensus pattern (84 bp):
ATGCCATATCCCAAATATGGTCTTACAGCAATCTCATATCGATGCCAATAGTCCAGCTATGGTCT
TACACGAAATCTCATAACG
Found at i:47977758 original size:83 final size:84
Alignment explanation
Indices: 47977598--47977762 Score: 221
Period size: 83 Copynumber: 2.0 Consensus size: 84
47977588 TTACATGTAA
* *
47977598 TCTCATATCGATGCCAATAGTCCAGCTATGGTCTTACACGAAATCTCATATCGATGCCATATCCC
1 TCTCATATCGATGCCAATAGTCCAGCTATGGTCTTACACGAAATCTCATAACGATGCCATATCAC
**
47977663 AAATATGGTCTTACACAAT
66 AAATATCATCTTACACAAT
* *
47977682 TCTCATATTGATGCC-AT-GTCCCAGAC-ATGGTCTTACACGAAATCTCATAACGATGTCATAT-
1 TCTCATATCGATGCCAATAGT-CCAG-CTATGGTCTTACACGAAATCTCATAACGATGCCATATC
47977743 ACAAGATATCATCTTACACA
64 ACAA-ATATCATCTTACACA
47977763 TAAAATCATA
Statistics
Matches: 72, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
82 5 0.07
83 52 0.72
84 15 0.21
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.30
Consensus pattern (84 bp):
TCTCATATCGATGCCAATAGTCCAGCTATGGTCTTACACGAAATCTCATAACGATGCCATATCAC
AAATATCATCTTACACAAT
Found at i:47978229 original size:14 final size:13
Alignment explanation
Indices: 47978206--47978235 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
47978196 ATTTTCACCG
47978206 AAAATCATTTAAC
1 AAAATCATTTAAC
47978219 AAAAGTCATTTAAC
1 AAAA-TCATTTAAC
47978233 AAA
1 AAA
47978236 CCATAAACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (13 bp):
AAAATCATTTAAC
Found at i:47984262 original size:261 final size:260
Alignment explanation
Indices: 47983757--47984280 Score: 868
Period size: 261 Copynumber: 2.0 Consensus size: 260
47983747 ACGAGGTATG
* * *
47983757 GCACCGGTAAGAATCGGTAAAGCCCCTATAGATAAGCTTAGAAGTATGGGGCTGAGAAATTCAGA
1 GCACCAGTAAGAATCAGTAAAGCCCCTATAGATAAGCTTAGAAGTATGGGGCTGAGAAACTCAGA
* * *
47983822 GCTAAAGTTGATGATGACACTGAAAGAGCTGAGTTTTGGCTCGAAAATACTACACGGGTGCTAGA
66 GCTAAAGTTGATGATGACACTGAAAGAGCCGAGTTCTGGCTCGAAAATACTACACGAGTGCTAGA
*
47983887 TGATTTGTCATGAACACCCGAGGAATGTTTGAAGTCTGCTGTGTCCCTTTTGAAGGACACTACAT
131 TGATTTGTCATGAACACCCGAGGAATGTTTGAAGTCTGATGTGTCCCTTTTGAAGGACACTACAT
* *
47983952 ACAATTGGTGGAAGACCGTATCCTCGGTAGTGCCGAAAGAAAATATTACTTGGGATTTCTTCTAA
196 ACAATTGGTGGAAGACCGTATCCTCAGTAGTGCCGAAAGAAAATATTACTTGGGATTTCTTCCAA
* * *
47984017 GCACCAGTGAGAATCAGTAAAGCCCCTGTAGATAAGCTTAGAAAGTATGGGGCTGAGGAACTCAG
1 GCACCAGTAAGAATCAGTAAAGCCCCTATAGATAAGCTTAG-AAGTATGGGGCTGAGAAACTCAG
* *
47984082 AGCTACAGTTGATGATGACGCTGAAAGAGCCGAGTTCTGGCTCGAAAATACTACACGAGTGCTAG
65 AGCTAAAGTTGATGATGACACTGAAAGAGCCGAGTTCTGGCTCGAAAATACTACACGAGTGCTAG
* * * *
47984147 ATGATTTGTCATGCACACCTGAGGAATGTTTGAAGTGTGATGTGTCCCTTTTGAAGGACACTGCA
130 ATGATTTGTCATGAACACCCGAGGAATGTTTGAAGTCTGATGTGTCCCTTTTGAAGGACACTACA
*
47984212 TACAATTGGTGGAAGACCGTATCTTCAGTAGTGCCGAAAGAAAATATTACTTGGGATTTCTTCCA
195 TACAATTGGTGGAAGACCGTATCCTCAGTAGTGCCGAAAGAAAATATTACTTGGGATTTCTTCCA
47984277 A
260 A
47984278 GCA
1 GCA
47984281 GAGTTCAGGA
Statistics
Matches: 244, Mismatches: 19, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
260 37 0.15
261 207 0.85
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.26
Consensus pattern (260 bp):
GCACCAGTAAGAATCAGTAAAGCCCCTATAGATAAGCTTAGAAGTATGGGGCTGAGAAACTCAGA
GCTAAAGTTGATGATGACACTGAAAGAGCCGAGTTCTGGCTCGAAAATACTACACGAGTGCTAGA
TGATTTGTCATGAACACCCGAGGAATGTTTGAAGTCTGATGTGTCCCTTTTGAAGGACACTACAT
ACAATTGGTGGAAGACCGTATCCTCAGTAGTGCCGAAAGAAAATATTACTTGGGATTTCTTCCAA
Found at i:47992131 original size:7 final size:7
Alignment explanation
Indices: 47992119--47992146 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
47992109 GCCGAAGCCT
47992119 TTTCATA
1 TTTCATA
47992126 TTTCATA
1 TTTCATA
47992133 TTTCATA
1 TTTCATA
47992140 TTTCATA
1 TTTCATA
47992147 ACACTGGGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.00, T:0.57
Consensus pattern (7 bp):
TTTCATA
Found at i:47992441 original size:26 final size:26
Alignment explanation
Indices: 47992375--47992485 Score: 147
Period size: 26 Copynumber: 4.3 Consensus size: 26
47992365 CTGGAGGCCT
*
47992375 AGCCTCTTTT-AAT-AACTGGGGCAAA
1 AGCC-CTTTTCAATAAACTGGGGCATA
**
47992400 AGCCC-TTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
47992425 AGCCCTTTTCAATAAACTGGTGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
47992451 AGCCCTTTTCAATAAATTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
47992477 AGCCCTTTT
1 AGCCCTTTT
47992486 GCACTTCCAC
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
23 3 0.04
24 2 0.03
25 20 0.27
26 50 0.67
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:47992560 original size:20 final size:20
Alignment explanation
Indices: 47992535--47992591 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
47992525 TTATGAATAC
47992535 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
47992555 ATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACAT
*
47992575 ATCATGTGCATGTCATA
1 ATCATGTGCATATCATA
47992592 TCAATATTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:47992566 original size:11 final size:11
Alignment explanation
Indices: 47992535--47992590 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
47992525 TTATGAATAC
47992535 ATCATGTGCAT
1 ATCATGTGCAT
*
47992546 ATCA--TACAT
1 ATCATGTGCAT
47992555 ATCATGTGCAT
1 ATCATGTGCAT
*
47992566 ATC--GTACAT
1 ATCATGTGCAT
47992575 ATCATGTGCAT
1 ATCATGTGCAT
*
47992586 GTCAT
1 ATCAT
47992591 ATCAATATTG
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
9 16 0.44
11 20 0.56
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:47999465 original size:5 final size:5
Alignment explanation
Indices: 47999455--47999482 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
47999445 TCTTGGTAAA
47999455 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
47999483 TTTCGAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:48000614 original size:11 final size:11
Alignment explanation
Indices: 48000598--48000655 Score: 61
Period size: 11 Copynumber: 5.6 Consensus size: 11
48000588 TTATGAATAC
48000598 ATCATATGCAT
1 ATCATATGCAT
48000609 ATCATA--CAT
1 ATCATATGCAT
*
48000618 ATCATGTGCAT
1 ATCATATGCAT
48000629 ATCATA--CAT
1 ATCATATGCAT
*
48000638 ATCATGTGCAT
1 ATCATATGCAT
*
48000649 GTCATAT
1 ATCATAT
48000656 CAATATTGTA
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
9 16 0.42
11 22 0.58
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.36
Consensus pattern (11 bp):
ATCATATGCAT
Found at i:48000627 original size:20 final size:20
Alignment explanation
Indices: 48000598--48000654 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
48000588 TTATGAATAC
*
48000598 ATCATATGCATATCATACAT
1 ATCATGTGCATATCATACAT
48000618 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
48000638 ATCATGTGCATGTCATA
1 ATCATGTGCATATCATA
48000655 TCAATATTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:48001051 original size:21 final size:20
Alignment explanation
Indices: 48001017--48001056 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
48001007 TGGGCCTGAA
48001017 AGCCCATTGGGCCCAACTTC
1 AGCCCATTGGGCCCAACTTC
*
48001037 AGCCCCTTGAGGCCCAACTT
1 AGCCCATTG-GGCCCAACTT
48001057 ACTGTCATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.20, C:0.40, G:0.20, T:0.20
Consensus pattern (20 bp):
AGCCCATTGGGCCCAACTTC
Found at i:48003777 original size:43 final size:43
Alignment explanation
Indices: 48003695--48003779 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 43
48003685 AAATCATAAA
*
48003695 ATGCCAACGTCCTAGACGTGGTCTTACATGTAGTCACATATCG
1 ATGCCAACGTCCTAGACGTGGTCTTACATGTAATCACATATCG
*
48003738 ATGCC-ACTGTCCTAGACAG-GGTCTTACTTGTAAAT-ACATATC
1 ATGCCAAC-GTCCTAGAC-GTGGTCTTACATGT-AATCACATATC
48003780 AAAATCACAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
42 2 0.05
43 32 0.86
44 3 0.08
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (43 bp):
ATGCCAACGTCCTAGACGTGGTCTTACATGTAATCACATATCG
Found at i:48004548 original size:22 final size:22
Alignment explanation
Indices: 48004520--48004571 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
48004510 CTAGCATGGA
48004520 ATTGAGCTAGACCCATACCTTG
1 ATTGAGCTAGACCCATACCTTG
48004542 ATTGAGCTAGACCCATACCTTG
1 ATTGAGCTAGACCCATACCTTG
48004564 ATTGAGCT
1 ATTGAGCT
48004572 TAGAAATTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (22 bp):
ATTGAGCTAGACCCATACCTTG
Found at i:48004588 original size:35 final size:35
Alignment explanation
Indices: 48004542--48004613 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
48004532 CCATACCTTG
48004542 ATTGAGCTAGACCCATACCTTGATTGAGCTTAGAA
1 ATTGAGCTAGACCCATACCTTGATTGAGCTTAGAA
48004577 ATTGAGCTAGACCCATACCTTGATTGAGCTTAGAA
1 ATTGAGCTAGACCCATACCTTGATTGAGCTTAGAA
48004612 AT
1 AT
48004614 GGCCGAACCC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.29
Consensus pattern (35 bp):
ATTGAGCTAGACCCATACCTTGATTGAGCTTAGAA
Found at i:48007084 original size:43 final size:41
Alignment explanation
Indices: 48006984--48007085 Score: 116
Period size: 43 Copynumber: 2.4 Consensus size: 41
48006974 ATTCGCATCA
* *
48006984 TGTCTGGGACATCGGCATCGTATTGATTTCATGTAAGACCC
1 TGTCTGGGACATTGGCATCGTATTGATTACATGTAAGACCC
* * *
48007025 TGTTTGGGATAATGGCATCGATATTTGATTACATGTAAGACCAC
1 TGTCTGGGACATTGGCATCG-TA-TTGATTACATGTAAGACC-C
*
48007069 -GTCTGGGACGTTGGCAT
1 TGTCTGGGACATTGGCAT
48007086 TGTACGAGCT
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
41 16 0.33
42 2 0.04
43 30 0.61
44 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (41 bp):
TGTCTGGGACATTGGCATCGTATTGATTACATGTAAGACCC
Found at i:48014643 original size:42 final size:42
Alignment explanation
Indices: 48014543--48014657 Score: 112
Period size: 42 Copynumber: 2.7 Consensus size: 42
48014533 TCTGGGTCGT
*
48014543 TGGCATCGACT-TATGATTTTCGTGTAAGACCATGTCTGAGACA
1 TGGCATCGA-TATTTGA-TTTCGTGTAAGACCATGTCTGAGACA
* * *
48014586 TCGACATCG-TA-TTGATTTCGTGTAAGACC-TGTCTGGGATA
1 T-GGCATCGATATTTGATTTCGTGTAAGACCATGTCTGAGACA
* *
48014626 GTGGCATCGATATTTGATTACATGTAAGACCA
1 -TGGCATCGATATTTGATTTCGTGTAAGACCA
48014658 CATTTGGAAC
Statistics
Matches: 59, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
40 15 0.25
41 17 0.29
42 20 0.34
43 1 0.02
44 6 0.10
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.33
Consensus pattern (42 bp):
TGGCATCGATATTTGATTTCGTGTAAGACCATGTCTGAGACA
Found at i:48014881 original size:34 final size:36
Alignment explanation
Indices: 48014838--48014925 Score: 135
Period size: 36 Copynumber: 2.5 Consensus size: 36
48014828 CTTTGTGGAC
*
48014838 ATCTGATATA-A-GTATGAATTGCTATGAGAATGAG
1 ATCTGATATACACATATGAATTGCTATGAGAATGAG
48014872 ATCTGATATACACATATGAATTGCTATGAGAATGAG
1 ATCTGATATACACATATGAATTGCTATGAGAATGAG
* *
48014908 ATATGATATATACATATG
1 ATCTGATATACACATATG
48014926 TGAATCATGA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
34 10 0.20
35 1 0.02
36 38 0.78
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.33
Consensus pattern (36 bp):
ATCTGATATACACATATGAATTGCTATGAGAATGAG
Found at i:48015457 original size:25 final size:25
Alignment explanation
Indices: 48015428--48015475 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
48015418 TGTGAAAATT
48015428 TGTGATAGGGATATGTATCATTGAA
1 TGTGATAGGGATATGTATCATTGAA
48015453 TGTGATAGGGATATGTATCATTG
1 TGTGATAGGGATATGTATCATTG
48015476 GTAGGTGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.29, C:0.04, G:0.29, T:0.38
Consensus pattern (25 bp):
TGTGATAGGGATATGTATCATTGAA
Found at i:48024185 original size:24 final size:24
Alignment explanation
Indices: 48024157--48024208 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
48024147 CCTTCATACC
*
48024157 CATATACACATGAA-CACATCCATA
1 CATATACACA-AAAGCACATCCATA
* *
48024181 CATATATACAAAAGCACATGCATA
1 CATATACACAAAAGCACATCCATA
48024205 CATA
1 CATA
48024209 CGTTCCATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 2 0.08
24 22 0.92
ACGTcount: A:0.48, C:0.25, G:0.06, T:0.21
Consensus pattern (24 bp):
CATATACACAAAAGCACATCCATA
Found at i:48024484 original size:59 final size:56
Alignment explanation
Indices: 48024385--48024559 Score: 217
Period size: 59 Copynumber: 3.0 Consensus size: 56
48024375 CGCCACAGAT
* *
48024385 CACAGAATCACATGCCTCTCAACGGGGCTACTCAAAAGCACTCAGACCCTAGCATGTAC
1 CACACAATCACATGCCTCTCAA-GAGGCTACTCAAAAGCAC-C-GACCCTAGCATGTAC
* *
48024444 CATA-AATTCACATGCCTCTCAATGAGGCTACTCAAAAGCACCCGGACCCTAGCATGTAT
1 CACACAA-TCACATGCCTCTCAA-GAGGCTACTCAAAAGCA-CC-GACCCTAGCATGTAC
*
48024503 CACACAATCACATGCCTCTCAACAGGGCTACTCAAAAGCACCGAACCCTAGCATGTA
1 CACACAATCACATGCCTCTCAAGA-GGCTACTCAAAAGCACCG-ACCCTAGCATGTA
48024560 TTACGTATCA
Statistics
Matches: 104, Mismatches: 7, Indels: 11
0.85 0.06 0.09
Matches are distributed among these distances:
57 1 0.01
58 18 0.17
59 82 0.79
60 3 0.03
ACGTcount: A:0.33, C:0.33, G:0.15, T:0.18
Consensus pattern (56 bp):
CACACAATCACATGCCTCTCAAGAGGCTACTCAAAAGCACCGACCCTAGCATGTAC
Found at i:48026340 original size:46 final size:46
Alignment explanation
Indices: 48026273--48026450 Score: 173
Period size: 46 Copynumber: 3.8 Consensus size: 46
48026263 TGTAACCCAC
* *
48026273 CCATAAGTGAACTTGGACTCAACTCAACGATCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGATCTCGGATGTTCGCAT
* * * * *
48026319 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGATCTCGGATG-TTCGCAT
* *** **
48026365 ACATCTCTCGAACTCGGACTCAACTCAACGAGT-TCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGA-TCTCGGATGTTCGCAT
*
48026412 CCATAAGTGAACTCGGACTTAACTCAACGAGT-TCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGA-TCTCGGATG
48026451 CCCAATTATC
Statistics
Matches: 103, Mismatches: 25, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
46 70 0.68
47 33 0.32
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.24
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGATCTCGGATGTTCGCAT
Found at i:48026394 original size:93 final size:93
Alignment explanation
Indices: 48026281--48026452 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
48026271 ACCCATAAGT
* ***
48026281 GAACTTGGACTCAACTCAACGA-TCTCGGGTGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGT-TCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
48026345 ACGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
* *
48026374 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTTAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
48026439 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
48026453 CAATTATCCT
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
93 70 0.99
94 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:48026467 original size:46 final size:47
Alignment explanation
Indices: 48026324--48026467 Score: 124
Period size: 46 Copynumber: 3.1 Consensus size: 47
48026314 CGCATCCATA
* * * *
48026324 AGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATT-CATC-CT
*
48026373 --CGAACTCGGACTCAACTCAACGAGTTCGGA----C-ATTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATT--CATCC-T
*
48026416 AAGTGAACTCGGACTTAACTCAACGAGTTCGGATGCCCAATT-ATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATTCATCCT
48026463 AGTGA
1 AGTGA
48026468 CATGTCACTT
Statistics
Matches: 77, Mismatches: 8, Indels: 23
0.71 0.07 0.21
Matches are distributed among these distances:
42 3 0.04
43 5 0.06
46 33 0.43
47 28 0.36
48 4 0.05
50 1 0.01
51 3 0.04
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (47 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATTCATCCT
Found at i:48031246 original size:7 final size:7
Alignment explanation
Indices: 48031234--48031430 Score: 74
Period size: 7 Copynumber: 27.7 Consensus size: 7
48031224 ACTAATTAAT
48031234 TTAAACC
1 TTAAACC
48031241 TTAAACC
1 TTAAACC
**
48031248 TTTATCCC
1 -TTAAACC
**
48031256 TTATCCC
1 TTAAACC
*
48031263 CTAAACC
1 TTAAACC
* *
48031270 CTAAATC
1 TTAAACC
* *
48031277 ATAAAAC
1 TTAAACC
*
48031284 ATAAACC
1 TTAAACC
*
48031291 CTAAATCC
1 TTAAA-CC
48031299 -TAAACC
1 TTAAACC
48031305 TTAAACC
1 TTAAACC
48031312 TTAAACC
1 TTAAACC
*
48031319 TCTAACCC
1 T-TAAACC
* *
48031327 CTAACCC
1 TTAAACC
* *
48031334 CTAACCC
1 TTAAACC
*
48031341 CT-AACAC
1 TTAAAC-C
48031348 TTAAACC
1 TTAAACC
48031355 TTAAACC
1 TTAAACC
** *
48031362 CCAACCC
1 TTAAACC
48031369 TTAAACC
1 TTAAACC
*
48031376 ATAAACC
1 TTAAACC
*
48031383 ATAAACC
1 TTAAACC
*
48031390 ATAAACC
1 TTAAACC
* *
48031397 ATAATCC
1 TTAAACC
*
48031404 CTAAACTC
1 TTAAAC-C
* *
48031412 ATAATCC
1 TTAAACC
*
48031419 ATAAACC
1 TTAAACC
48031426 TTAAA
1 TTAAA
48031431 ATCGTAACTT
Statistics
Matches: 155, Mismatches: 28, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
6 4 0.03
7 131 0.85
8 20 0.13
ACGTcount: A:0.42, C:0.35, G:0.00, T:0.23
Consensus pattern (7 bp):
TTAAACC
Found at i:48031325 original size:21 final size:21
Alignment explanation
Indices: 48031285--48031407 Score: 102
Period size: 21 Copynumber: 5.8 Consensus size: 21
48031275 TCATAAAACA
* * *
48031285 TAAACCCTAAATCCTAAACCT
1 TAAACCTTAAACCCTAACCCT
*
48031306 TAAACCTTAAACCTCTAACCCC
1 TAAACCTTAAACC-CTAACCCT
* * * *
48031328 TAACCCCTAACCCCTAACACT
1 TAAACCTTAAACCCTAACCCT
*
48031349 TAAACCTTAAACCCCAACCCT
1 TAAACCTTAAACCCTAACCCT
* * * *
48031370 TAAACCATAAACCATAAACCA
1 TAAACCTTAAACCCTAACCCT
* *
48031391 TAAACCATAATCCCTAA
1 TAAACCTTAAACCCTAA
48031408 ACTCATAATC
Statistics
Matches: 80, Mismatches: 21, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
21 64 0.80
22 16 0.20
ACGTcount: A:0.42, C:0.37, G:0.00, T:0.20
Consensus pattern (21 bp):
TAAACCTTAAACCCTAACCCT
Found at i:48032035 original size:116 final size:114
Alignment explanation
Indices: 48031810--48032046 Score: 273
Period size: 116 Copynumber: 2.1 Consensus size: 114
48031800 AAAAGTGTTG
* * *
48031810 CTAATGCCACTATACATCAATATAAAATGACGGCGTCTTACTGAATTTTTTGCAGTGTTTTTCAA
1 CTAATGCCACTAAACATCAACATAAAATGACGGCGTCTTACTGAATTTTTTGCAGTGTTTTCCAA
* * *
48031875 AAAGTGCCGCTAATGCTCGATCTATAGTGGCCTTTTTCAAAAAGCACCA
66 AAAGCGCCGCTAATGCTCGACCTATAGCGGCCTTTTTCAAAAAGCACCA
* * *
48031924 CTAATGCCACTAAA-ACTCAACATAAAATGACGGCGT-TGTGCTTAATTTTTTTTG-TGATGTTT
1 CTAATGCCACTAAACA-TCAACATAAAATGACGGCGTCT-TACTGAA--TTTTTTGCAG-TGTTT
* ** * *
48031986 TCCAAAAAGCGCCGCTAATGGTCGACCTATAGCGGTGTTTTTTAGAAAGCACCA
61 TCCAAAAAGCGCCGCTAATGCTCGACCTATAGCGGCCTTTTTCAAAAAGCACCA
*
48032040 CCAATGC
1 CTAATGC
48032047 TCGATCTAGA
Statistics
Matches: 103, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
113 2 0.02
114 37 0.36
115 1 0.01
116 63 0.61
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (114 bp):
CTAATGCCACTAAACATCAACATAAAATGACGGCGTCTTACTGAATTTTTTGCAGTGTTTTCCAA
AAAGCGCCGCTAATGCTCGACCTATAGCGGCCTTTTTCAAAAAGCACCA
Found at i:48032060 original size:40 final size:40
Alignment explanation
Indices: 48032002--48032113 Score: 116
Period size: 40 Copynumber: 2.8 Consensus size: 40
48031992 AAGCGCCGCT
* * * * *
48032002 AATGGTCGACCTATAGCGGTGTTTTTTAGAAAGCACCACC
1 AATGCTCGATCTATAGCGGTGTTTTTTAAAAAGAAACACC
* ** * * *
48032042 AATGCTCGATCTAGAGCGGCATTTTTCAAAAAGAAACGCT
1 AATGCTCGATCTATAGCGGTGTTTTTTAAAAAGAAACACC
*
48032082 AATGCTCAATCTATAGCGGTGTTTTTTAAAAA
1 AATGCTCGATCTATAGCGGTGTTTTTTAAAAA
48032114 CGCCACTAAT
Statistics
Matches: 56, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
40 56 1.00
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (40 bp):
AATGCTCGATCTATAGCGGTGTTTTTTAAAAAGAAACACC
Found at i:48032153 original size:195 final size:189
Alignment explanation
Indices: 48031867--48032314 Score: 506
Period size: 188 Copynumber: 2.3 Consensus size: 189
48031857 TTTTGCAGTG
*** * *
48031867 TTTTTCAAAAAGTGCCGCTAATGCTCGATCTATAGTGGCCTTTTTCAAAAAGCACCACTAATGCC
1 TTTTTCAAAAAGAAACGCTAATGCTCAATCTATAGCGGCCTTTTTCAAAAAGCACCACTAATGCC
* * *
48031932 ACTAAAACTCAACATAAAATGACGGCGTTGTGCTTAATTTTTTTTGTG-ATGTTTTCCAAAAAGC
66 ACTAAAACTCAACATAAAACGACGGCGTTATGCTTAA-TTTTTGTG-GCAT-TTTT-CAAAAAGC
* ** * *
48031996 GCCGCTAATGGTCGACCTATAGCGGTGTTTTTTAGAAAGCACCACCAATGCTCGATCTAGAGCGG
127 ACAACTAATGGTCGACCTATAGCGGCGTTTTTTA-AAA--AACA-CAATGCTCGATCTAGAGCGG
48032061 CA
188 CA
** * *
48032063 TTTTTCAAAAAGAAACGCTAATGCTCAATCTATAGCGGTGTTTTTTAAAAA-CGCCACTAATGCC
1 TTTTTCAAAAAGAAACGCTAATGCTCAATCTATAGCGGCCTTTTTCAAAAAGCACCACTAATGCC
*
48032127 ACTAAAGCTCAACATAAAACGACGGCGTTATGCTTAATTTTTGTGGCATTTTTCAAAAAGCACAA
66 ACTAAAACTCAACATAAAACGACGGCGTTATGCTTAATTTTTGTGGCATTTTTCAAAAAGCACAA
* * * * * * *
48032192 CTAATGGTTGAGCTATAGTGGCGTTTTTTAAAAAAGATAATGCTCGATCTATAGTGGCA
131 CTAATGGTCGACCTATAGCGGCGTTTTTTAAAAAACACAATGCTCGATCTAGAGCGGCA
** * ** * *
48032251 TTTTTCAAAAAG-CGCTACTAATGCTTGATCTATAGCGGCATTTTTCAAAAAGCACCGCTAATGC
1 TTTTTCAAAAAGAAAC-GCTAATGCTCAATCTATAGCGGCCTTTTTCAAAAAGCACCACTAATGC
48032315 TCGATCTCTA
Statistics
Matches: 214, Mismatches: 35, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
187 1 0.00
188 60 0.28
189 12 0.06
191 3 0.01
192 35 0.16
193 5 0.02
194 9 0.04
195 46 0.21
196 43 0.20
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (189 bp):
TTTTTCAAAAAGAAACGCTAATGCTCAATCTATAGCGGCCTTTTTCAAAAAGCACCACTAATGCC
ACTAAAACTCAACATAAAACGACGGCGTTATGCTTAATTTTTGTGGCATTTTTCAAAAAGCACAA
CTAATGGTCGACCTATAGCGGCGTTTTTTAAAAAACACAATGCTCGATCTAGAGCGGCA
Found at i:48032225 original size:40 final size:40
Alignment explanation
Indices: 48032169--48032335 Score: 180
Period size: 40 Copynumber: 4.3 Consensus size: 40
48032159 CTTAATTTTT
* *
48032169 GTGGCATTTTTCAAAAAGCACAACTAATGGTTGAGCTATA
1 GTGGCATTTTTCAAAAAGCACAACTAATGCTTGATCTATA
* * * *
48032209 GTGGCGTTTTTTAAAAA--A-GA-TAATGCTCGATCTATA
1 GTGGCATTTTTCAAAAAGCACAACTAATGCTTGATCTATA
* *
48032245 GTGGCATTTTTCAAAAAGCGCTACTAATGCTTGATCTATA
1 GTGGCATTTTTCAAAAAGCACAACTAATGCTTGATCTATA
* ** * *
48032285 GCGGCATTTTTCAAAAAGCACCGCTAATGCTCGATCTCTA
1 GTGGCATTTTTCAAAAAGCACAACTAATGCTTGATCTATA
*
48032325 GCGGCATTTTT
1 GTGGCATTTTT
48032336 TTTCCAAACA
Statistics
Matches: 106, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
36 28 0.26
37 1 0.01
38 1 0.01
39 1 0.01
40 75 0.71
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (40 bp):
GTGGCATTTTTCAAAAAGCACAACTAATGCTTGATCTATA
Found at i:48032254 original size:76 final size:78
Alignment explanation
Indices: 48032169--48032335 Score: 212
Period size: 76 Copynumber: 2.1 Consensus size: 78
48032159 CTTAATTTTT
* * * *
48032169 GTGGCATTTTTCAAAAAGCACAACTAATGGTTGAGCTATAGTGGCGTTTTTTAAAAA-A-GATAA
1 GTGGCATTTTTCAAAAAGCACAACTAATGCTTGAGCTATAGCGGCATTTTTCAAAAACACGATAA
48032232 TGCTCGATCTATA
66 TGCTCGATCTATA
* * * *
48032245 GTGGCATTTTTCAAAAAGCGCTACTAATGCTTGATCTATAGCGGCATTTTTCAAAAAGCACCGCT
1 GTGGCATTTTTCAAAAAGCACAACTAATGCTTGAGCTATAGCGGCATTTTTCAAAAA-CA-CGAT
*
48032310 AATGCTCGATCTCTA
64 AATGCTCGATCTATA
*
48032325 GCGGCATTTTT
1 GTGGCATTTTT
48032336 TTTCCAAACA
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
76 50 0.65
78 1 0.01
80 26 0.34
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (78 bp):
GTGGCATTTTTCAAAAAGCACAACTAATGCTTGAGCTATAGCGGCATTTTTCAAAAACACGATAA
TGCTCGATCTATA
Found at i:48032552 original size:10 final size:10
Alignment explanation
Indices: 48032539--48032563 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
48032529 ACTTTCTGTC
48032539 TGATGGGAAT
1 TGATGGGAAT
48032549 TGATGGGAAT
1 TGATGGGAAT
48032559 TGATG
1 TGATG
48032564 AGAAAATGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.40, T:0.32
Consensus pattern (10 bp):
TGATGGGAAT
Found at i:48033605 original size:27 final size:27
Alignment explanation
Indices: 48033575--48033652 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 27
48033565 ATTACCAAAG
48033575 TACCCTCGATTTACAAAATTA-TCGTTT
1 TACCCTCGATTTACAAAATTACT-GTTT
* *
48033602 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
48033629 TACTCTTGATTTACAAAATTACTG
1 TACCCTCGATTTACAAAATTACTG
48033653 AAATACCCTT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
27 43 0.98
28 1 0.02
ACGTcount: A:0.29, C:0.19, G:0.09, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGTTT
Found at i:48033668 original size:27 final size:27
Alignment explanation
Indices: 48033638--48033743 Score: 131
Period size: 27 Copynumber: 3.9 Consensus size: 27
48033628 TTACTCTTGA
** *
48033638 TTTACAAAATTACTGAAATACCCTTAG
1 TTTACAAAATTACCAAAATACCCCTAG
*
48033665 TTTACAAAATTACCAAAATACCCCTGG
1 TTTACAAAATTACCAAAATACCCCTAG
**
48033692 TTTGTAAAATTACCAAAATACCCCTAG
1 TTTACAAAATTACCAAAATACCCCTAG
** *
48033719 TTTGTAAGATTACCAAAATACCCCT
1 TTTACAAAATTACCAAAATACCCCT
48033744 GATTTGTGAA
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 71 1.00
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.30
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCCCTAG
Found at i:48033701 original size:54 final size:54
Alignment explanation
Indices: 48033643--48033769 Score: 173
Period size: 54 Copynumber: 2.4 Consensus size: 54
48033633 CTTGATTTAC
* *
48033643 AAAATTACTGAAATACCCTTAGTTTACAAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATACCCCTGATTTGT
* * ** *
48033697 AAAATTACCAAAATACCCCTAGTTTGTAAGATTACCAAAATACCCCTGATTTGT
1 AAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATACCCCTGATTTGT
* *
48033751 GAAATTACTTAAATACCCT
1 AAAATTACTAAAATACCCT
48033770 CGACTTGTAA
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 62 1.00
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (54 bp):
AAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATACCCCTGATTTGT
Found at i:48033749 original size:27 final size:27
Alignment explanation
Indices: 48033670--48033797 Score: 152
Period size: 27 Copynumber: 4.7 Consensus size: 27
48033660 CTTAGTTTAC
*
48033670 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
48033697 AAAATTACCAAAATACCCCT-AGTTTGT
1 AAAATTACCAAAATACCCCTGA-TTTGT
*
48033724 AAGATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* ** *
48033751 GAAATTACTTAAATA-CCCTCGACTTGT
1 AAAATTACCAAAATACCCCT-GATTTGT
* *
48033778 AAAATTATCGAAATACCCCT
1 AAAATTACCAAAATACCCCT
48033798 ATAGGGTAGA
Statistics
Matches: 86, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
26 4 0.05
27 77 0.90
28 5 0.06
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGATTTGT
Found at i:48033810 original size:27 final size:27
Alignment explanation
Indices: 48033787--48033893 Score: 135
Period size: 27 Copynumber: 4.0 Consensus size: 27
48033777 TAAAATTATC
*
48033787 GAAATACCCCTATAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
**
48033814 GAAATACCTTTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
*
48033841 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACT
* * *
48033868 GAGATACCCTTGT-GGGATAAAATTAC
1 GAAATACCCCTGTAGGG-TAGAATTAC
48033894 CATTTTACCC
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
26 3 0.04
27 67 0.96
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACT
Found at i:48033811 original size:54 final size:54
Alignment explanation
Indices: 48033753--48033893 Score: 144
Period size: 54 Copynumber: 2.6 Consensus size: 54
48033743 TGATTTGTGA
* **
48033753 AATTACTTAAATACCCTCG-ACTTGTAAAATTA-TCGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTCGTA-GGGTAAAATTACT-GAAATACCCCTATAGGGTAG
* * * *
48033807 AATTACTGAAATACCTTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTCGTAGGGTAAAATTACTGAAATACCCCTATAGGGTAG
* * *
48033861 AATTACCGAGATACCCTTGT-GGGATAAAATTAC
1 AATTACTGAAATACCCTCGTAGGG-TAAAATTAC
48033894 CATTTTACCC
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
53 3 0.04
54 68 0.93
55 2 0.03
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (54 bp):
AATTACTGAAATACCCTCGTAGGGTAAAATTACTGAAATACCCCTATAGGGTAG
Found at i:48033905 original size:54 final size:54
Alignment explanation
Indices: 48033776--48033893 Score: 150
Period size: 54 Copynumber: 2.2 Consensus size: 54
48033766 CCCTCGACTT
* *
48033776 GTAAAATTA-TCGAAATACCCCTATAGGGTAGAATTACTGAAATACCTTTGTAGG
1 GTAAAATTACTC-AAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGG
* * * *
48033830 GTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAGATACCCTTGT-GG
1 GTAAAATTACTCAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGG
48033883 GATAAAATTAC
1 G-TAAAATTAC
48033894 CATTTTACCC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
53 3 0.05
54 51 0.93
55 1 0.02
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (54 bp):
GTAAAATTACTCAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGG
Found at i:48034156 original size:24 final size:24
Alignment explanation
Indices: 48034099--48034170 Score: 81
Period size: 25 Copynumber: 2.9 Consensus size: 24
48034089 AGGAAGTGCG
*
48034099 AAAAGGGCTTTGCCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAG-TTATCA
*
48034124 AAAAGGGCTTTGCCCCAGTTATTA
1 AAAAGGGCTTTGCCCCAGTTATCA
* **
48034148 AAAAAGGCTAGGCCTCCAGTTAT
1 AAAAGGGCTTTGCC-CCAGTTAT
48034171 ATGATAAAGC
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
24 15 0.37
25 26 0.63
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTATCA
Found at i:48042130 original size:44 final size:45
Alignment explanation
Indices: 48042066--48042151 Score: 129
Period size: 44 Copynumber: 1.9 Consensus size: 45
48042056 TAAGATCCGA
* *
48042066 TATGTGTTTCCGTGTAAGACCACGTCTGGGACGTTGGCATCGATT
1 TATGTGTTTACGTGTAAGACCACGTCTGGGACATTGGCATCGATT
* *
48042111 TATGT-TTTACGTGTAAGACCATGTTTGGGACATTGGCATCG
1 TATGTGTTTACGTGTAAGACCACGTCTGGGACATTGGCATCG
48042152 TTTCTGATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 32 0.86
45 5 0.14
ACGTcount: A:0.20, C:0.17, G:0.28, T:0.35
Consensus pattern (45 bp):
TATGTGTTTACGTGTAAGACCACGTCTGGGACATTGGCATCGATT
Found at i:48047637 original size:46 final size:46
Alignment explanation
Indices: 48047584--48047759 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
48047574 TATTTGGGCA
48047584 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *** * *
48047630 TCCGAACTCGTTGAGTTGAGCCCGAGTTCGAGAGATGTAACTAG-GCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
* * *
48047677 TCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
48047723 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48047760 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 65 0.62
47 30 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:48047739 original size:93 final size:93
Alignment explanation
Indices: 48047580--48047752 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
48047570 AGGATATTTG
* *
48047580 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAATGCCCGAACTCGTTGAG
48047645 TTGAGCCCGAGTTCGAGAGATGTAACTA
66 TTGAGCCCGAGTTCGAGAGATGTAACTA
* * *
48047673 GGCATCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAATGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAATGCCCGAACTCGTTGAG
*
48047738 TTGAGTCCGAGTTCG
66 TTGAGCCCGAGTTCG
48047753 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAATGCCCGAACTCGTTGAG
TTGAGCCCGAGTTCGAGAGATGTAACTA
Found at i:48050658 original size:23 final size:23
Alignment explanation
Indices: 48050632--48050677 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
48050622 TTTCTTTGAA
48050632 GAATTATCGGGGTATTCTGTATT
1 GAATTATCGGGGTATTCTGTATT
48050655 GAATTATCGGGGTATTCTGTATT
1 GAATTATCGGGGTATTCTGTATT
48050678 TTCTCTATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.09, G:0.26, T:0.43
Consensus pattern (23 bp):
GAATTATCGGGGTATTCTGTATT
Found at i:48050767 original size:15 final size:15
Alignment explanation
Indices: 48050728--48050807 Score: 85
Period size: 15 Copynumber: 5.4 Consensus size: 15
48050718 GTATCTTGGG
*
48050728 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
48050743 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
48050758 TTTCTTTATTCTGTG-
1 TTTCTTTATTCTG-GA
*
48050773 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
48050788 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
48050802 TTTCTT
1 TTTCTT
48050808 ATTATCTTTG
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
14 11 0.20
15 41 0.75
16 3 0.05
ACGTcount: A:0.10, C:0.17, G:0.12, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:48050797 original size:30 final size:30
Alignment explanation
Indices: 48050719--48050806 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
48050709 CATAGTATCG
* * * *
48050719 TATCTTGGGTTTCTTTATCCTG-GATCTCTT
1 TATCTTGGATTTCTTTATTCTGTG-TTTCTC
48050749 TAT-TCTGGATTTCTTTATTCTGTGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGTGTTTCTC
*
48050779 TATCTTGGATTTCTTTATTCGGT-TTTCT
1 TATCTTGGATTTCTTTATTCTGTGTTTCT
48050807 TATTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 6 0.12
30 42 0.84
31 2 0.04
ACGTcount: A:0.10, C:0.17, G:0.15, T:0.58
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGTGTTTCTC
Found at i:48053196 original size:46 final size:44
Alignment explanation
Indices: 48053143--48053318 Score: 149
Period size: 46 Copynumber: 3.8 Consensus size: 44
48053133 TATTTGGGCA
48053143 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-G
* *** * *
48053189 TCCGAACTCGTTGAGTTGAGCCCGAGTTCGAGAGATGTAACTAGGCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GGAAG
* * * *
48053236 TCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTCAAGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-G
* *
48053282 -CCCAAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48053319 GCGGGTTACA
Statistics
Matches: 101, Mismatches: 21, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 4 0.04
46 58 0.57
47 30 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.28
Consensus pattern (44 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAAG
Found at i:48053298 original size:93 final size:93
Alignment explanation
Indices: 48053139--48053311 Score: 258
Period size: 93 Copynumber: 1.9 Consensus size: 93
48053129 AGGATATTTG
* * * *
48053139 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCAAGGATGCGAACGTCCCAACTCGTTGAG
48053204 TTGAGCCCGAGTTCGAGAGATGTAACTA
66 TTGAGCCCGAGTTCGAGAGATGTAACTA
* * *
48053232 GGCATCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTCAAGGATGTGAACG-CCCAAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCAAGGATGCGAACGTCCCAA-CTCGTTGA
*
48053296 GTTGAGTCCGAGTTCG
65 GTTGAGCCCGAGTTCG
48053312 CTTATGGGCG
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
92 4 0.06
93 67 0.94
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCAAGGATGCGAACGTCCCAACTCGTTGAG
TTGAGCCCGAGTTCGAGAGATGTAACTA
Found at i:48055852 original size:14 final size:15
Alignment explanation
Indices: 48055824--48055852 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
48055814 TGGTAATAAG
48055824 ATAATAATGGCTTGA
1 ATAATAATGGCTTGA
48055839 ATAATAAT-GCTTGA
1 ATAATAATGGCTTGA
48055853 TGATTAAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.34
Consensus pattern (15 bp):
ATAATAATGGCTTGA
Found at i:48058184 original size:32 final size:32
Alignment explanation
Indices: 48058164--48058224 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
48058154 CTTCTTTTTA
48058164 ATTATTTTTCAATCTGGTCCTAATTCCTTAAT
1 ATTATTTTTCAATCTGGTCCTAATTCCTTAAT
*
48058196 ATTGTTTTTCAATCTGGTCCTAATTCCTT
1 ATTATTTTTCAATCTGGTCCTAATTCCTT
48058225 TATTTTTTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.21, C:0.20, G:0.08, T:0.51
Consensus pattern (32 bp):
ATTATTTTTCAATCTGGTCCTAATTCCTTAAT
Found at i:48058233 original size:28 final size:31
Alignment explanation
Indices: 48058168--48058232 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 31
48058158 TTTTTAATTA
48058168 TTTTTCAATCTGGTCCTAATTCCTTAATATTG
1 TTTTTCAATCTGGTCCTAATTCCTT-ATATTG
48058200 TTTTTCAATCTGGTCCTAATTCCTT-TATT-
1 TTTTTCAATCTGGTCCTAATTCCTTATATTG
48058229 TTTT
1 TTTT
48058233 CTTTTAGATT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
29 4 0.12
30 4 0.12
32 25 0.76
ACGTcount: A:0.18, C:0.18, G:0.08, T:0.55
Consensus pattern (31 bp):
TTTTTCAATCTGGTCCTAATTCCTTATATTG
Found at i:48075670 original size:40 final size:40
Alignment explanation
Indices: 48075579--48075748 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
48075569 TCCTCGTTCA
** * * * *
48075579 AATGCCTTCGGGACACAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
48075618 AATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
48075658 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * *
48075698 AATGCCCTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
48075738 AAGGCCTTCGG
1 AATGCCTTCGG
48075749 ATCTTAGTCC
Statistics
Matches: 113, Mismatches: 17, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 32 0.28
40 81 0.72
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:48088143 original size:37 final size:37
Alignment explanation
Indices: 48088084--48088192 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
48088074 ATCTCAGACG
* *
48088084 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
48088121 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
48088158 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
48088193 ATATATTTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:48088462 original size:48 final size:48
Alignment explanation
Indices: 48088338--48088522 Score: 291
Period size: 48 Copynumber: 3.8 Consensus size: 48
48088328 GCACATCGCC
* *
48088338 TACATTTTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
48088388 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
48088436 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
48088484 TACATATTTCGCATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
48088523 TGCATGTTCA
Statistics
Matches: 126, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
48 83 0.66
49 2 0.02
50 41 0.33
ACGTcount: A:0.30, C:0.26, G:0.08, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:48088527 original size:98 final size:97
Alignment explanation
Indices: 48088338--48088521 Score: 300
Period size: 98 Copynumber: 1.9 Consensus size: 97
48088328 GCACATCGCC
* *
48088338 TACATTTTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA-ATACATATTTCACATT
48088403 GACCATTCGGCTTTACCACATATGCATATCTCA
65 GACCATTCGGCTTTACCACATATGCATATCTCA
* *
48088436 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC-ATACATATTTCGCATT-
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATTG
48088499 AGCCATTCGGCTTTACCACATAT
66 A-CCATTCGGCTTTACCACATAT
48088522 ATGCATGTTC
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
95 1 0.01
96 35 0.43
98 45 0.56
ACGTcount: A:0.29, C:0.27, G:0.08, T:0.36
Consensus pattern (97 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATTG
ACCATTCGGCTTTACCACATATGCATATCTCA
Found at i:48088571 original size:47 final size:47
Alignment explanation
Indices: 48088495--48088779 Score: 426
Period size: 47 Copynumber: 6.1 Consensus size: 47
48088485 ACATATTTCG
* * * * *
48088495 CATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCACCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * *
48088542 CATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCG
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
48088589 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCACCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * *
48088636 CATTGGCCATTCGGCCTTATCACACATATGCATGCTCATATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
48088683 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * **
48088730 CATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
48088777 CAT
1 CAT
48088780 AAAATCCTAA
Statistics
Matches: 215, Mismatches: 23, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 215 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:48088658 original size:25 final size:25
Alignment explanation
Indices: 48088630--48088705 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 25
48088620 ATGTTCACAT
48088630 TCACCACATTGGCCATTCGGCCTTA
1 TCACCACATTGGCCATTCGGCCTTA
*
48088655 TCA-CACATAT-G-CA-T--GCTCATA
1 TCACCACAT-TGGCCATTCGGC-CTTA
*
48088676 TTCATCACATTGGCCATTCGGCCTTA
1 -TCACCACATTGGCCATTCGGCCTTA
48088702 TCAC
1 TCAC
48088706 ATATATGCAT
Statistics
Matches: 39, Mismatches: 3, Indels: 18
0.65 0.05 0.30
Matches are distributed among these distances:
20 2 0.05
21 3 0.08
22 5 0.13
23 8 0.21
24 8 0.21
25 8 0.21
26 3 0.08
27 2 0.05
ACGTcount: A:0.24, C:0.33, G:0.13, T:0.30
Consensus pattern (25 bp):
TCACCACATTGGCCATTCGGCCTTA
Found at i:48088706 original size:22 final size:22
Alignment explanation
Indices: 48088679--48088750 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
48088669 GCTCATATTC
48088679 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
48088701 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
48088725 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
48088748 ATC
1 ATC
48088751 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:48092740 original size:28 final size:28
Alignment explanation
Indices: 48092708--48092817 Score: 148
Period size: 28 Copynumber: 3.9 Consensus size: 28
48092698 ATGTTGTTGA
* *
48092708 ATACTCAATATATCACACACTAAGTACC
1 ATACTCAATATCTCACACACTAAGTGCC
*
48092736 ATACTCAATATCTCACACACTAAGTGTC
1 ATACTCAATATCTCACACACTAAGTGCC
* * *
48092764 ATACTCGATGTCTCACACACTAAGCGCC
1 ATACTCAATATCTCACACACTAAGTGCC
* *
48092792 ACACTCAATATCTCGCACACTAAGTG
1 ATACTCAATATCTCACACACTAAGTG
48092818 TTGTACATAG
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 70 1.00
ACGTcount: A:0.35, C:0.31, G:0.09, T:0.25
Consensus pattern (28 bp):
ATACTCAATATCTCACACACTAAGTGCC
Found at i:48092858 original size:40 final size:41
Alignment explanation
Indices: 48092807--48092908 Score: 136
Period size: 40 Copynumber: 2.5 Consensus size: 41
48092797 CAATATCTCG
**
48092807 CACACTAAGTGTTGTACATAGCCGAAGCTATCTCGAATC-T
1 CACACTAAGTGTCATACATAGCCGAAGCTATCTCGAATCGT
* *
48092847 CACACTAAGTGTCATATATAGCCGAAGCTATGTCGAATCGT
1 CACACTAAGTGTCATACATAGCCGAAGCTATCTCGAATCGT
* *
48092888 -ACACTAAGTGACATAAATAGC
1 CACACTAAGTGTCATACATAGC
48092909 TGATTTGTCA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
40 54 0.98
41 1 0.02
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (41 bp):
CACACTAAGTGTCATACATAGCCGAAGCTATCTCGAATCGT
Found at i:48112540 original size:66 final size:65
Alignment explanation
Indices: 48112417--48112546 Score: 145
Period size: 66 Copynumber: 2.0 Consensus size: 65
48112407 GGCCAAGGAC
* * *
48112417 ATGCCTGTGTGCCAGGCCATGTGAAAATTGGAGGGTATACTGACTTATGCAATACGGCCAAGTCA
1 ATGCCTGTATGCCAGGCCATGTGAAAATTGGAGGGTATACTGACTTATACAACACGGCC-AGTCA
48112482 A
65 A
* * ** * * *
48112483 ATGCCTGTATGCTAGGCCGTGTGCCAATTAGG-GGGTATGCTGACTTGTACCACACGGCCAGTCA
1 ATGCCTGTATGCCAGGCCATGTGAAAATT-GGAGGGTATACTGACTTATACAACACGGCCAGTCA
48112547 CACGCTCGTG
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
65 5 0.09
66 46 0.87
67 2 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (65 bp):
ATGCCTGTATGCCAGGCCATGTGAAAATTGGAGGGTATACTGACTTATACAACACGGCCAGTCAA
Found at i:48131985 original size:17 final size:18
Alignment explanation
Indices: 48131951--48131985 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
48131941 CATATGGCCT
*
48131951 GCCCGTGTGGGCCTACAC
1 GCCCGTGTGGGCCCACAC
48131969 GCCCGTGT-GGCCCACAC
1 GCCCGTGTGGGCCCACAC
48131986 ATCCCAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.11, C:0.43, G:0.31, T:0.14
Consensus pattern (18 bp):
GCCCGTGTGGGCCCACAC
Found at i:48133359 original size:28 final size:28
Alignment explanation
Indices: 48133323--48133458 Score: 193
Period size: 28 Copynumber: 4.9 Consensus size: 28
48133313 GCTGTTGAAT
* * *
48133323 ACTCAATATCTCACACACTAAGTACCAC
1 ACTCGATATCTCGCACACTAAGTGCCAC
48133351 ACTCGATATCTCGCACACTACA-TGCCAC
1 ACTCGATATCTCGCACACTA-AGTGCCAC
48133379 ACTCGATATCTCGCACACTAAGTGCCAC
1 ACTCGATATCTCGCACACTAAGTGCCAC
* *
48133407 ACTCGGTATCTCTCACACTAAGTGCCAC
1 ACTCGATATCTCGCACACTAAGTGCCAC
* *
48133435 ACTTGGTATCTCGCACACTAAGTG
1 ACTCGATATCTCGCACACTAAGTG
48133459 TCGTACAAAG
Statistics
Matches: 99, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
27 1 0.01
28 97 0.98
29 1 0.01
ACGTcount: A:0.29, C:0.35, G:0.12, T:0.24
Consensus pattern (28 bp):
ACTCGATATCTCGCACACTAAGTGCCAC
Found at i:48133369 original size:16 final size:16
Alignment explanation
Indices: 48133348--48133397 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
48133338 CACTAAGTAC
48133348 CACACTCGATATCTCG
1 CACACTCGATATCTCG
* *
48133364 CACACT--ACAT-GC-
1 CACACTCGATATCTCG
48133376 CACACTCGATATCTCG
1 CACACTCGATATCTCG
48133392 CACACT
1 CACACT
48133398 AAGTGCCACA
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
12 6 0.23
13 1 0.04
14 6 0.23
15 1 0.04
16 12 0.46
ACGTcount: A:0.28, C:0.40, G:0.10, T:0.22
Consensus pattern (16 bp):
CACACTCGATATCTCG
Found at i:48141136 original size:20 final size:20
Alignment explanation
Indices: 48141111--48141150 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
48141101 GTCCACCATG
48141111 GAAGGGGATTGTATCAGTTA
1 GAAGGGGATTGTATCAGTTA
48141131 GAAGGGGATTGTATCAGTTA
1 GAAGGGGATTGTATCAGTTA
48141151 TGCCAAGAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.05, G:0.35, T:0.30
Consensus pattern (20 bp):
GAAGGGGATTGTATCAGTTA
Found at i:48142952 original size:44 final size:44
Alignment explanation
Indices: 48142889--48143407 Score: 207
Period size: 44 Copynumber: 11.6 Consensus size: 44
48142879 CATCGTAGCG
** * * * *
48142889 AATCTTATCTCATTGAAGTTGCAGTGGAGCAAATTAAAGCCAGA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTACA
** * * * **
48142933 AATCTTATCTCCCTAAAGTTGCAAAGGGGCAGATTATAGATAGTG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTA-CA
* * * * * * *
48142978 AATCTTATCTCTCTAAGGTTGTAATAGAGCAGGTTGAAGCTACA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * *
48143022 AATCTCATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * *
48143066 AGTCTTATCTCCCTAAAGTTGCAGTGAAGTAGATTAAAACT--A
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * * *
48143108 AATCCTATAC-CTCTAGAGTTGCAGTAGG-TC-GAATTAAAACTACCATAGAA
1 AATCTTAT-CTCCCTAAAGTTGCAGT-GGAGCAG-ATTAAAGCTA-C-----A
* * *
48143158 AATCTTATCT-CTTGAAGTCGCAGTGGAGCAGATTAAAGCTACA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * * * **
48143201 AGTCTTATATCCTTGAAGTTGTAGTGGAGTGGATTTAAA-CTA-A
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGA-TTAAAGCTACA
* * * * * *
48143244 ATTC-TATAC-CTCTAAAGTTGTAGTAGG-TCGGATTAAATCTACCATAGCA
1 AATCTTAT-CTCCCTAAAGTTGCAGT-GGAGCAGATT-AA---AGC-TA-CA
* * * *
48143293 AATCTTATCTTCCTGAAGTGGCAGTGGAGAAGATTAAAGCTACA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * * * ** *
48143337 AGTCTTATCTCCTTGAAGCTACAGTGGAATAGATTAAAACTACA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTACA
** *
48143381 GTTCTTATAC-CCCAAAAGTTGCAGTGG
1 AATCTTAT-CTCCCTAAAGTTGCAGTGG
48143408 GTTAAAATGT
Statistics
Matches: 349, Mismatches: 95, Indels: 62
0.69 0.19 0.12
Matches are distributed among these distances:
41 3 0.01
42 49 0.14
43 17 0.05
44 176 0.50
45 41 0.12
46 3 0.01
47 2 0.01
48 3 0.01
49 29 0.08
50 26 0.07
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.30
Consensus pattern (44 bp):
AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTACA
Found at i:48143364 original size:136 final size:136
Alignment explanation
Indices: 48143020--48143405 Score: 513
Period size: 135 Copynumber: 2.8 Consensus size: 136
48143010 GTTGAAGCTA
* * * * * *
48143020 CAAATCTCATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAGTCTTATCTCCCTAAAGT
1 CAAATCTTATCTTCCTGAAGTCGCAGTGGAGCAGATTAAAGCTACAAGTCTTATCTCCTTGAAGT
* * *
48143085 TGCAGTGAAGTAGATTAAAACTAAATCCTATACCTCTAGAGTTGCAGTAGGTCGAATTAAAACTA
66 TGCAGTGGAGTAGATTAAAACTAAATTCTATACCTCTAAAGTTGCAGTAGGTCGAATTAAAACTA
48143150 CCATAG
131 CCATAG
* * *
48143156 AAAATCTTATC-TCTTGAAGTCGCAGTGGAGCAGATTAAAGCTACAAGTCTTATATCCTTGAAGT
1 CAAATCTTATCTTCCTGAAGTCGCAGTGGAGCAGATTAAAGCTACAAGTCTTATCTCCTTGAAGT
* * * * * *
48143220 TGTAGTGGAGTGGATTTAAACTAAATTCTATACCTCTAAAGTTGTAGTAGGTCGGATTAAATCTA
66 TGCAGTGGAGTAGATTAAAACTAAATTCTATACCTCTAAAGTTGCAGTAGGTCGAATTAAAACTA
48143285 CCATAG
131 CCATAG
* * *
48143291 CAAATCTTATCTTCCTGAAGTGGCAGTGGAGAAGATTAAAGCTACAAGTCTTATCTCCTTGAAGC
1 CAAATCTTATCTTCCTGAAGTCGCAGTGGAGCAGATTAAAGCTACAAGTCTTATCTCCTTGAAGT
* * * * *
48143356 TACAGTGGAATAGATTAAAACTACAGTTCTTATACCCCAAAAGTTGCAGT
66 TGCAGTGGAGTAGATTAAAACTA-AATTC-TATACCTCTAAAGTTGCAGT
48143406 GGGTTAAAAT
Statistics
Matches: 214, Mismatches: 33, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
135 118 0.55
136 75 0.35
137 4 0.02
138 17 0.08
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.30
Consensus pattern (136 bp):
CAAATCTTATCTTCCTGAAGTCGCAGTGGAGCAGATTAAAGCTACAAGTCTTATCTCCTTGAAGT
TGCAGTGGAGTAGATTAAAACTAAATTCTATACCTCTAAAGTTGCAGTAGGTCGAATTAAAACTA
CCATAG
Found at i:48143612 original size:20 final size:22
Alignment explanation
Indices: 48143578--48143628 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
48143568 ACAAGTAAAT
*
48143578 AAAAGAAAA-ATTACAA-ACCC
1 AAAATAAAATATTACAAGACCC
*
48143598 -AAATAAAATATTACAAGGCCC
1 AAAATAAAATATTACAAGACCC
48143619 AAAATAAAAT
1 AAAATAAAAT
48143629 GAAAACCCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 7 0.27
20 7 0.27
21 3 0.12
22 9 0.35
ACGTcount: A:0.63, C:0.16, G:0.06, T:0.16
Consensus pattern (22 bp):
AAAATAAAATATTACAAGACCC
Found at i:48144726 original size:4 final size:4
Alignment explanation
Indices: 48144702--48144836 Score: 53
Period size: 4 Copynumber: 33.5 Consensus size: 4
48144692 TTTTTATTCT
* * * *
48144702 TTTA TTCA TTTA TTTA CTTA TTTA TTTA TTCA -TTA GTCCT- TTTA TTTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA -T-TTA TTTA -TTTA
* * * * * * * * *
48144751 TTCA TTTA TTTA CTCA TCTA CTTA TCTA TTTA TATA -TTA TTCA CTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * *
48144798 TTTA TTT- TTTA TTTTA ATCA TTTTA TTCA TTTA TTTA TT
1 TTTA TTTA TTTA -TTTA TTTA -TTTA TTTA TTTA TTTA TT
48144837 ATTCCTTCAT
Statistics
Matches: 90, Mismatches: 32, Indels: 18
0.64 0.23 0.13
Matches are distributed among these distances:
3 8 0.09
4 71 0.79
5 10 0.11
6 1 0.01
ACGTcount: A:0.24, C:0.11, G:0.01, T:0.64
Consensus pattern (4 bp):
TTTA
Found at i:48144803 original size:23 final size:23
Alignment explanation
Indices: 48144770--48144862 Score: 64
Period size: 23 Copynumber: 4.0 Consensus size: 23
48144760 TTACTCATCT
*
48144770 ACTTATCTATTTATATATTATTC
1 ACTTATTTATTTATATATTATTC
* * *
48144793 ACTTATTTATTTTTTATTTTAATC
1 ACTTATTTA-TTTATATATTATTC
* * *
48144817 ATTTTATTCATTTATTTATTATTC
1 A-CTTATTTATTTATATATTATTC
*
48144841 -CTTCATTTTTTTA-ATTATTATT
1 ACTT-ATTTATTTATA-TATTATT
48144863 TTTTTTCCTT
Statistics
Matches: 52, Mismatches: 14, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
22 2 0.04
23 22 0.42
24 22 0.42
25 6 0.12
ACGTcount: A:0.26, C:0.10, G:0.00, T:0.65
Consensus pattern (23 bp):
ACTTATTTATTTATATATTATTC
Found at i:48144901 original size:15 final size:15
Alignment explanation
Indices: 48144883--48144912 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
48144873 TTCTCGATTA
*
48144883 TTTTTTTCTTTTTTC
1 TTTTTTTCTTCTTTC
48144898 TTTTTTTCTTCTTTC
1 TTTTTTTCTTCTTTC
48144913 GTGCTTTTAT
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:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTTTCTTCTTTC
Found at i:48145073 original size:40 final size:42
Alignment explanation
Indices: 48145029--48145113 Score: 97
Period size: 40 Copynumber: 2.1 Consensus size: 42
48145019 TATTGGTACA
*
48145029 TTTTTT-GTTTATTATTGTCA-TTTATTATTTTAT-TT-TTAT
1 TTTTTTAGTGTATTATTGTCATTTTATTA-TTTATCTTATTAT
* * *
48145068 TTTTTTAGTGTGTTCTTGTTATTTTATTATTTATCTTATTAT
1 TTTTTTAGTGTATTATTGTCATTTTATTATTTATCTTATTAT
48145110 TTTT
1 TTTT
48145114 AGTACTTTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
39 6 0.16
40 15 0.39
41 9 0.24
42 8 0.21
ACGTcount: A:0.16, C:0.04, G:0.07, T:0.73
Consensus pattern (42 bp):
TTTTTTAGTGTATTATTGTCATTTTATTATTTATCTTATTAT
Found at i:48152168 original size:55 final size:58
Alignment explanation
Indices: 48152075--48152213 Score: 151
Period size: 55 Copynumber: 2.4 Consensus size: 58
48152065 ATGTATACAA
* ** ** * *
48152075 CAGGATTACCAGTCCAGGCTAAATCCTTTTTATGACATATGCT-TA-AGGACTTGAT-T
1 CAGGATTACCTGTCCAGGCTAAATCCAATCCATAACATATGCTCGAGAGGACTT-ATAT
* *
48152131 -TGGATTACCTGTCCAAGCTAAATCCAATCCATAACATATGCTCGAGAGGACTTATAT
1 CAGGATTACCTGTCCAGGCTAAATCCAATCCATAACATATGCTCGAGAGGACTTATAT
*
48152188 CAAGATTACCTGTCCAGGCTAAATCC
1 CAGGATTACCTGTCCAGGCTAAATCC
48152214 TTTCTGTAAT
Statistics
Matches: 67, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
55 34 0.51
56 3 0.04
57 8 0.12
58 22 0.33
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (58 bp):
CAGGATTACCTGTCCAGGCTAAATCCAATCCATAACATATGCTCGAGAGGACTTATAT
Found at i:48173195 original size:46 final size:45
Alignment explanation
Indices: 48173130--48173300 Score: 150
Period size: 46 Copynumber: 3.7 Consensus size: 45
48173120 ACATCTCGTA
* *
48173130 GCCGATACATGTCCTAGACATGTCTTACACTGGCTTACCTCTTGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACCTCTT-AG
* * *
48173176 GCCGATGCATGTCCCAGACATGTCTTACACTAGC--ACTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTAC-C-TCT-TAG
* * **
48173222 GCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCT-CATAATATG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACCTCTTA-G
* *
48173270 GTCGATGCATGTCCTAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
48173301 AGCTCACAAT
Statistics
Matches: 101, Mismatches: 15, Indels: 18
0.75 0.11 0.13
Matches are distributed among these distances:
44 2 0.02
45 1 0.01
46 52 0.51
47 26 0.26
48 19 0.19
50 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACCTCTTAG
Found at i:48173249 original size:94 final size:94
Alignment explanation
Indices: 48173033--48173303 Score: 281
Period size: 94 Copynumber: 2.9 Consensus size: 94
48173023 TGGGGCAAGG
** * * *
48173033 TGCCGATGCCATGTCCCAGACATGGTCTTACACAAGTTCTAGCATATCTG-TGCTGATGCCATGT
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTA-CATAT-TGAGGCCGATG-CATGT
*
48173097 CCTAGACATGGTCTTACACTAACACATCTCGTA
63 CCTAGACAT-GTCTTACACTAGCACATCTCGTA
* * * * *
48173130 -GCCGAT-ACATGTCCTAGACAT-GTCTTACACTGGCT-TACCTCTTGAGGCCGATGCATGTCCC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATATTGAGGCCGATGCATGTCCT
48173191 AGACATGTCTTACACTAGCAC-TCGTC-TCAA
66 AGACATGTCTTACACTAGCACATC-TCGT--A
* * *
48173221 TGCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCT-CATAAT-ATGGTCGATGCATGTCC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATATTGA-GGCCGATGCATGTCC
48173284 TAGACATGTCTTACACTAGC
65 TAGACATGTCTTACACTAGC
48173304 TCACAATAAC
Statistics
Matches: 146, Mismatches: 19, Indels: 21
0.78 0.10 0.11
Matches are distributed among these distances:
89 3 0.02
90 16 0.11
91 16 0.11
92 15 0.10
93 15 0.10
94 61 0.42
95 14 0.10
96 6 0.04
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (94 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATATTGAGGCCGATGCATGTCCT
AGACATGTCTTACACTAGCACATCTCGTA
Found at i:48177581 original size:98 final size:94
Alignment explanation
Indices: 48177467--48178194 Score: 952
Period size: 98 Copynumber: 7.5 Consensus size: 94
48177457 TTAGGATTTT
* *
48177467 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA--
**
48177532 CGTATATATATGTGTGATAAGGCCGAATGGCCA
64 C--ATGCATATGTGTGATAAGGCCGAATGGCCA
* * * *
48177565 ATCTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCACTGTGATGGATGTGAACA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
*
48177630 TGCGTATGTGTGATAAGGCCGAATGGCCA
66 TGCATATGTGTGATAAGGCCGAATGGCCA
**
48177659 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 ATGTGATGAATGTGAA--C--ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
* * *
48177724 AACATGCGTATGTGTGGTAAGGCCGAATGGTCA
62 AACATGCATATGTGTGATAAGGCCGAATGGCCA
** *
48177757 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTC
1 ATGTGATGAATGTGAA--C--ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
*
48177822 AACATGCGTATGTGTGATAAGGCCGAATGGCCA
62 AACATGCATATGTGTGATAAGGCCGAATGGCCA
* * *
48177855 CTGTGATGGATGTGAACATGCATATGTGTGATAAGGTCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA--
**
48177920 CGTATATATATGTGTGATAAGGCCGAATGGCCA
64 C--ATGCATATGTGTGATAAGGCCGAATGGCCA
* * *
48177953 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCACTGTGATGGATGTGAACA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
*
48178018 TGCATATGTGTGATAAGGTCGAATGGCCA
66 TGCATATGTGTGATAAGGCCGAATGGCCA
**
48178047 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 ATGTGATGAATGTGAA--C--ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
* *
48178112 AACATGCATATATGAGATAAGGCCGAATGGCCA
62 AACATGCATATGTGTGATAAGGCCGAATGGCCA
* * * * *
48178145 ATGTGATGGATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTAATG
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATG
48178195 CGAAACGTGT
Statistics
Matches: 568, Mismatches: 50, Indels: 28
0.88 0.08 0.04
Matches are distributed among these distances:
94 155 0.27
96 7 0.01
98 406 0.71
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.27
Consensus pattern (94 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:48177617 original size:145 final size:143
Alignment explanation
Indices: 48177489--48178194 Score: 1011
Period size: 145 Copynumber: 4.9 Consensus size: 143
48177479 TGAACATGCG
**
48177489 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA--C--ATGCATATGTGTGATAAGG
* * * *
48177554 CCGAATGGCCAATCTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCACTGTGAT
62 CCGAATGGCCAATGTGATGGATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGAT
* ***
48177619 GGATGTGAA-C-ATGCG
127 GAATGTGAACCGATATA
**
48177634 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA--C--ATGCATATGTGTGATAAGG
* * * *
48177699 CCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGGTAAGGCCGAATGGTCAATGTGAT
62 CCGAATGGCCAATGTGATGGATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGAT
48177764 GAATGTGAACCCGTATATA
127 GAATGTGAA-CCG-ATATA
* *
48177783 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTCAACATGCGTATGTGTGATAAGGCCGA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGA
* *
48177848 ATGGCCACTGTGATGGATGTGAACATGCATATGTGTGATAAGGTCGAATGGCCAATGTGATGAAT
66 ATGGCCAATGTGATGGATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAT
48177913 GTGAACCCGTATATA
131 GTGAA-CCG-ATATA
*
48177928 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGA
* *
48177993 ATGGCCACTGTGATGGATGTGAACATGCATATGTGTGATAAGGTCGAATGGCCAATGTGATGAAT
66 ATGGCCAATGTGATGGATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAT
48178058 GTGAACCCGTATATA
131 GTGAA-CCG-ATATA
* *
48178073 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGA
* * * *
48178138 ATGGCCAATGTGATGGATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTAATG
66 ATGGCCAATGTGATGGATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATG
48178195 CGAAACGTGT
Statistics
Matches: 529, Mismatches: 28, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
145 485 0.92
147 2 0.00
149 42 0.08
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.27
Consensus pattern (143 bp):
TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGA
ATGGCCAATGTGATGGATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAT
GTGAACCGATATA
Found at i:48177812 original size:24 final size:24
Alignment explanation
Indices: 48177784--48177859 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
48177774 CCGTATATAT
48177784 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
* * * **
48177808 A--TGTGATGAATGTCAACAT-GCGT
1 ATGTGTGAT-AAGGCCGA-ATGGCCA
48177831 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
*
48177855 CTGTG
1 ATGTG
48177860 ATGGATGTGA
Statistics
Matches: 36, Mismatches: 11, Indels: 10
0.63 0.19 0.18
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 14 0.39
25 6 0.17
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.25
Consensus pattern (24 bp):
ATGTGTGATAAGGCCGAATGGCCA
Found at i:48177898 original size:243 final size:243
Alignment explanation
Indices: 48177467--48178194 Score: 1157
Period size: 243 Copynumber: 3.0 Consensus size: 243
48177457 TTAGGATTTT
*
48177467 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
*
48177532 CGTATATATATGTGTGATAAGGCCGAATGGCCAATCTGATGAATGTGAACATGCGTATGTGTGAT
66 CGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGAT
*
48177597 AAGGCCGAATGGCCACTGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATG
131 AAGGCCGAATGGCCACTGTGATGGATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATG
48177662 TGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
196 TGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
* *
48177710 ATGTGATGAATGTGAACATGCGTATGTGTGGTAAGGCCGAATGGTCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
*
48177775 CGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTCAACATGCGTATGTGTGAT
66 CGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGAT
*
48177840 AAGGCCGAATGGCCACTGTGATGGATGTGAACATGCATATGTGTGATAAGGTCGAATGGCCAATG
131 AAGGCCGAATGGCCACTGTGATGGATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATG
48177905 TGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
196 TGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
* *
48177953 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCACTGTGATGGATGTGAA--
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
** * ***
48178016 C--ATGCATATGTGTGATAAGGTCGAATGGCCAATGTGATGAATGTGAACCCGTATATATATGTG
66 CGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA--C--ATGCGTATGTG
* * * *
48178079 TGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCC
127 TGATAAGGCCGAATGGCCACTGTGATGGATGTGAACATGCATATGTGTGATAAGGCCGAATGGCC
* ** *
48178144 AATGTGATGGATGTGAACATG-A-ATATATGTG-G-TAAGGCCGAATGGCTA
192 AATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
48178192 ATG
1 ATG
48178195 CGAAACGTGT
Statistics
Matches: 454, Mismatches: 27, Indels: 12
0.92 0.05 0.02
Matches are distributed among these distances:
239 60 0.13
240 1 0.00
241 11 0.02
242 1 0.00
243 381 0.84
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.27
Consensus pattern (243 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
CGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGAT
AAGGCCGAATGGCCACTGTGATGGATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATG
TGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
Found at i:48178257 original size:46 final size:46
Alignment explanation
Indices: 48178168--48178258 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
48178158 GAACATGAAT
* * * *
48178168 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * *
48178214 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
48178259 TGTATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:48178585 original size:37 final size:37
Alignment explanation
Indices: 48178406--48178567 Score: 297
Period size: 37 Copynumber: 4.4 Consensus size: 37
48178396 AATATATTCT
*
48178406 GGGTAAGACTCGATGACTACGTGTGGAGATTATGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
48178443 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
*
48178480 GGGTAAGACCCGATGACTAGGTGTGGAGATTATGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
*
48178517 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
48178554 GGGTAAGACCCGAT
1 GGGTAAGACCCGAT
48178568 AAATTCATGT
Statistics
Matches: 121, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 121 1.00
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.25
Consensus pattern (37 bp):
GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
Found at i:48180242 original size:40 final size:40
Alignment explanation
Indices: 48179840--48180230 Score: 622
Period size: 40 Copynumber: 9.8 Consensus size: 40
48179830 GAGAATTGAG
*
48179840 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
48179880 AGTGATGTATCCGGGCTAAGT-CCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
48179919 AGTGATATATCTGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
48179959 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
48179999 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
48180039 AGTGATATATCCGGGCTAAGTCTCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
48180079 AGTGATATATCCGGGCTAAGTCCTGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * *
48180119 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* ** *
48180159 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * * *
48180199 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCA
48180231 ATCATGCTGG
Statistics
Matches: 325, Mismatches: 25, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 36 0.11
40 289 0.89
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
Found at i:48180446 original size:25 final size:25
Alignment explanation
Indices: 48180407--48180457 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
48180397 TGTGTAATAA
* *
48180407 CGAATGAATATAGGCATTATGTGTG
1 CGAATGAATAGAGGCACTATGTGTG
* *
48180432 CGAATGATTAGAGGCACTGTGTGTG
1 CGAATGAATAGAGGCACTATGTGTG
48180457 C
1 C
48180458 AAATTCTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.27, C:0.12, G:0.31, T:0.29
Consensus pattern (25 bp):
CGAATGAATAGAGGCACTATGTGTG
Found at i:48180511 original size:58 final size:57
Alignment explanation
Indices: 48180442--48180550 Score: 164
Period size: 57 Copynumber: 1.9 Consensus size: 57
48180432 CGAATGATTA
* *
48180442 GAGGCACTGTGTGTGCAAATTCTTTTAACCGAGCACTATGTGTGCGAAATCGGTAATT
1 GAGGCACTGTGTGTGCAAATTC-TTCAACCAAGCACTATGTGTGCGAAATCGGTAATT
* * *
48180500 GAGGCACTGTGTGTGCGAGTTCTTCAACCAAGCACTATGTGTGCGAGATCG
1 GAGGCACTGTGTGTGCAAATTCTTCAACCAAGCACTATGTGTGCGAAATCG
48180551 ATCAGTGGGC
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
57 26 0.57
58 20 0.43
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.28
Consensus pattern (57 bp):
GAGGCACTGTGTGTGCAAATTCTTCAACCAAGCACTATGTGTGCGAAATCGGTAATT
Found at i:48182085 original size:41 final size:41
Alignment explanation
Indices: 48182040--48182170 Score: 99
Period size: 39 Copynumber: 3.1 Consensus size: 41
48182030 AAAACATGTC
48182040 ATAAACATGTTGGGGTAGTGCATTATGTAAGGATTAATAAA
1 ATAAACATGTTGGGGTAGTGCATTATGTAAGGATTAATAAA
* * * ** * * *
48182081 ATAAAGA-GCAT-GGGT-GTACAAGATGTTATGG-CTAAAAACA
1 ATAAACATG-TTGGGGTAGTGCATTATG-TAAGGATTAATAA-A
48182121 TGTCATAAACATGTTGGGGTAGTGCATTATGTAAGGATTAATAAA
1 ----ATAAACATGTTGGGGTAGTGCATTATGTAAGGATTAATAAA
48182166 ATAAA
1 ATAAA
48182171 GGGCATGGGC
Statistics
Matches: 63, Mismatches: 16, Indels: 22
0.62 0.16 0.22
Matches are distributed among these distances:
39 12 0.19
40 10 0.16
41 12 0.19
44 7 0.11
45 10 0.16
46 12 0.19
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.29
Consensus pattern (41 bp):
ATAAACATGTTGGGGTAGTGCATTATGTAAGGATTAATAAA
Found at i:48182144 original size:85 final size:85
Alignment explanation
Indices: 48182001--48182179 Score: 340
Period size: 85 Copynumber: 2.1 Consensus size: 85
48181991 GGCCGGCCAT
48182001 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
48182066 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
48182086 GAGCATGGGTGTACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
48182151 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
48182171 GGGCATGGG
1 GAGCATGGG
48182180 CAATAAAATA
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 92 1.00
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.27
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:48184421 original size:47 final size:47
Alignment explanation
Indices: 48184358--48184987 Score: 837
Period size: 47 Copynumber: 13.1 Consensus size: 47
48184348 TTAGGATTTT
* *
48184358 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* *** *
48184405 ATGCGATGAATGTGAACCCGTATATATATGTGTGATAGGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCA
48184456 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* *
48184503 CTGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
***
48184550 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCA
48184601 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
***
48184648 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCA
48184699 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* *
48184746 CTGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
***
48184793 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCA
* *
48184844 ATTTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAGTGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * *
48184891 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
** * * * *
48184938 ATGTGATGAATGTGAACATGAATATATGTGGTAATGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
48184985 ATG
1 ATG
48184988 CGAAACGTGT
Statistics
Matches: 517, Mismatches: 50, Indels: 32
0.86 0.08 0.05
Matches are distributed among these distances:
47 341 0.66
49 8 0.02
51 168 0.32
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:48184471 original size:98 final size:94
Alignment explanation
Indices: 48184358--48184987 Score: 837
Period size: 98 Copynumber: 6.5 Consensus size: 94
48184348 TTAGGATTTT
* * *
48184358 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCCAATGCGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA--
** *
48184423 CGTATATATATGTGTGATAGGGCCGAATGGCCA
64 C--ATGCATATGTGTGATAAGGCCGAATGGCCA
* *
48184456 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCACTGTGATGGATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
*
48184521 TGCGTATGTGTGATAAGGCCGAATGGCCA
66 TGCATATGTGTGATAAGGCCGAATGGCCA
***
48184550 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 ATGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
*
48184615 AACATGCGTATGTGTGATAAGGCCGAATGGCCA
62 AACATGCATATGTGTGATAAGGCCGAATGGCCA
***
48184648 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 ATGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
*
48184713 AACATGCGTATGTGTGATAAGGCCGAATGGCCA
62 AACATGCATATGTGTGATAAGGCCGAATGGCCA
* *
48184746 CTGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA--
**
48184811 CGTATATATATGTGTGATAAGGCCGAATGGCCA
64 C--ATGCATATGTGTGATAAGGCCGAATGGCCA
* *
48184844 ATTTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* *
48184909 TGCATATATGAGATAAGGCCGAATGGCCA
66 TGCATATGTGTGATAAGGCCGAATGGCCA
** * * * *
48184938 ATGTGATGAATGTGAACATGAATATATGTGGTAATGCCGAATGGCTAATG
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATG
48184988 CGAAACGTGT
Statistics
Matches: 486, Mismatches: 38, Indels: 20
0.89 0.07 0.04
Matches are distributed among these distances:
94 153 0.31
96 5 0.01
98 328 0.67
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.27
Consensus pattern (94 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:48184513 original size:145 final size:141
Alignment explanation
Indices: 48184358--48184987 Score: 846
Period size: 145 Copynumber: 4.4 Consensus size: 141
48184348 TTAGGATTTT
* * * *
48184358 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCCAATGCGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA--
* *
48184423 CGTATATATATGTGTGATAGGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGAT
64 C--ATACATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGAT
48184488 AAGGCCGAATGGCCA
127 AAGGCCGAATGGCCA
* * *
48184503 CTGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA--
*
48184568 CGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGAT
64 C--ATACATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGAT
48184633 AAGGCCGAATGGCCA
127 AAGGCCGAATGGCCA
**
48184648 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 ATGTGATGAATGTGAA--C--ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
* * * *
48184713 AACATGCGTATGTGTGATAAGGCCGAATGGCCACTGTGATGGATGTGAACATGCGTATGTGTGAT
62 AACATACATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGAT
48184778 AAGGCCGAATGGCCA
127 AAGGCCGAATGGCCA
** *
48184793 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATTTGATGAATGTG
1 ATGTGATGAATGTGAA--C--ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
* * * * * *
48184858 AACATGCGTATGTGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAACATGCATATATGAGAT
62 AACATACATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGAT
48184923 AAGGCCGAATGGCCA
127 AAGGCCGAATGGCCA
* * * * *
48184938 ATGTGATGAATGTGAACATGAATATATGTGGTAATGCCGAATGGCTAATG
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATG
48184988 CGAAACGTGT
Statistics
Matches: 453, Mismatches: 28, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
141 26 0.06
143 1 0.00
145 381 0.84
147 2 0.00
149 43 0.09
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.27
Consensus pattern (141 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TACATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGG
CCGAATGGCCA
Found at i:48184605 original size:24 final size:24
Alignment explanation
Indices: 48184577--48184652 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
48184567 CCGTATATAT
48184577 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
* * **
48184601 ATGTGATGA-ATGTG--AACAT-GCGT
1 ATGTG-TGATAAG-GCCGA-ATGGCCA
48184624 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
48184648 ATGTG
1 ATGTG
48184653 ATGAATGTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 4 0.11
23 12 0.32
24 17 0.46
25 4 0.11
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.25
Consensus pattern (24 bp):
ATGTGTGATAAGGCCGAATGGCCA
Found at i:48185051 original size:46 final size:46
Alignment explanation
Indices: 48184961--48185051 Score: 110
Period size: 46 Copynumber: 2.0 Consensus size: 46
48184951 GAACATGAAT
* * * **
48184961 ATATGTGGTAATGCCGAATGGCTAATGCGAAACGTGTATTAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * *
48185007 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
48185052 TGTATATATA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.27
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:48185304 original size:37 final size:37
Alignment explanation
Indices: 48185196--48185304 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
48185186 GGAAATATAT
*
48185196 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
48185233 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
48185270 TCCGGGTAAGACCCGATAACTTCATGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
48185305 CGTCTGAGCT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:48189812 original size:14 final size:14
Alignment explanation
Indices: 48189793--48189835 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
48189783 TGCTATGCAT
48189793 ACAAAATATAAAAG
1 ACAAAATATAAAAG
*
48189807 ACAAAAATATGAAAG
1 AC-AAAATATAAAAG
*
48189822 ACATAATAGTAAAA
1 ACAAAATA-TAAAA
48189836 TGTGAAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 7 0.29
15 17 0.71
ACGTcount: A:0.67, C:0.07, G:0.09, T:0.16
Consensus pattern (14 bp):
ACAAAATATAAAAG
Found at i:48189815 original size:15 final size:15
Alignment explanation
Indices: 48189795--48189824 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
48189785 CTATGCATAC
48189795 AAAATATAAAAGACA
1 AAAATATAAAAGACA
*
48189810 AAAATATGAAAGACA
1 AAAATATAAAAGACA
48189825 TAATAGTAAA
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:0.70, C:0.07, G:0.10, T:0.13
Consensus pattern (15 bp):
AAAATATAAAAGACA
Found at i:48193435 original size:21 final size:21
Alignment explanation
Indices: 48193409--48193448 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
48193399 TGTGAATTAA
48193409 TTAATTAATCTAA-ACAATATT
1 TTAATTAATC-AACACAATATT
48193430 TTAATTAATCAACACAATA
1 TTAATTAATCAACACAATA
48193449 CTTGTATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (21 bp):
TTAATTAATCAACACAATATT
Found at i:48194451 original size:2 final size:2
Alignment explanation
Indices: 48194444--48194481 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
48194434 CATGTGCACT
48194444 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
48194482 GATCTTTGCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:48206670 original size:24 final size:24
Alignment explanation
Indices: 48206616--48206778 Score: 157
Period size: 24 Copynumber: 6.7 Consensus size: 24
48206606 GAAATGACAT
*
48206616 TGGCACTAAGTGTGCGGATTTTGAA
1 TGGCACTATGTGTGCGGA-TTTGAA
*
48206641 TGGCACTATGTGTGCGGAATTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* *
48206665 TAGCACTATGTGTGCTGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* * * * *
48206689 TGTCAATAGGAGTGTGTGGATTTCTAA
1 TGGCACTA--TGTGTGCGGATTT-GAA
* * *
48206716 -GGCACTATGTGTGCGGGTTAGCA
1 TGGCACTATGTGTGCGGATTTGAA
*
48206739 TGGCACTAAGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
*
48206763 TAGCACTATGTGTGCG
1 TGGCACTATGTGTGCG
48206779 AAATCGATTG
Statistics
Matches: 108, Mismatches: 26, Indels: 9
0.76 0.18 0.06
Matches are distributed among these distances:
23 1 0.01
24 73 0.68
25 17 0.16
26 15 0.14
27 2 0.02
ACGTcount: A:0.23, C:0.13, G:0.32, T:0.32
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGAA
Found at i:48206727 original size:74 final size:75
Alignment explanation
Indices: 48206624--48206763 Score: 187
Period size: 74 Copynumber: 1.9 Consensus size: 75
48206614 ATTGGCACTA
* *
48206624 AGTGTGCGGATTTTGAATGGCACTATGTGTGCGGAATT-GAATAGCACTATGTGTGCTGATTTGA
1 AGTGTGCGGATTTTGAATGGCACTATGTGTGCGG-ATTAGAATAGCACTAAGTGTGCGGATTTGA
48206688 ATGTCAATAGG
65 ATGTCAATAGG
* * * *
48206699 AGTGTGTGGATTTCT-AA-GGCACTATGTGTGCGGGTTAGCATGGCACTAAGTGTGCGGATTTGA
1 AGTGTGCGGATTT-TGAATGGCACTATGTGTGCGGATTAGAATAGCACTAAGTGTGCGGATTTGA
48206762 AT
65 AT
48206764 AGCACTATGT
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
73 2 0.04
74 40 0.70
75 14 0.25
76 1 0.02
ACGTcount: A:0.24, C:0.11, G:0.32, T:0.33
Consensus pattern (75 bp):
AGTGTGCGGATTTTGAATGGCACTATGTGTGCGGATTAGAATAGCACTAAGTGTGCGGATTTGAA
TGTCAATAGG
Found at i:48213471 original size:46 final size:47
Alignment explanation
Indices: 48213415--48213576 Score: 131
Period size: 47 Copynumber: 3.5 Consensus size: 47
48213405 CACACCAAAT
* * * * *
48213415 CCATAACCCAGCCATGGTTTTACATAG-ATCACATATCAT-ACCGATG
1 CCATATCCCAGACATGGTCTTACAAAGAAGCACATAT-ATCACCGATG
* *
48213461 CCATATCCCAGATATGGTCTTACAAAGAAGCACATATTTCACCGATG
1 CCATATCCCAGACATGGTCTTACAAAGAAGCACATATATCACCGATG
* *
48213508 CCATATCCCAGATATGCTCTTATACGAAA-AA--ACATATCA-CACCGATG
1 CCATATCCCAGACATGGTC-T-TAC-AAAGAAGCACATAT-ATCACCGATG
*
48213555 CCATAGCCCAG-CTATGGTCTTA
1 CCATATCCCAGAC-ATGGTCTTA
48213577 TACGGAAATC
Statistics
Matches: 97, Mismatches: 12, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
45 2 0.02
46 24 0.25
47 62 0.64
48 1 0.01
49 5 0.05
50 3 0.03
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.25
Consensus pattern (47 bp):
CCATATCCCAGACATGGTCTTACAAAGAAGCACATATATCACCGATG
Found at i:48213577 original size:47 final size:49
Alignment explanation
Indices: 48213444--48213580 Score: 176
Period size: 47 Copynumber: 2.9 Consensus size: 49
48213434 TTACATAGAT
*
48213444 CACATATCATACCGATGCCATATCCCAGATATGGTC-T-TAC-AAAGAA
1 CACATATCACACCGATGCCATATCCCAGATATGGTCTTATACGAAAGAA
** *
48213490 GCACATATTTCACCGATGCCATATCCCAGATATGCTCTTATACGAAA-AA
1 -CACATATCACACCGATGCCATATCCCAGATATGGTCTTATACGAAAGAA
* *
48213539 -ACATATCACACCGATGCCATAGCCCAGCTATGGTCTTATACG
1 CACATATCACACCGATGCCATATCCCAGATATGGTCTTATACG
48213581 GAAATCATAT
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
47 69 0.88
48 1 0.01
49 5 0.06
50 3 0.04
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.25
Consensus pattern (49 bp):
CACATATCACACCGATGCCATATCCCAGATATGGTCTTATACGAAAGAA
Found at i:48214346 original size:336 final size:336
Alignment explanation
Indices: 48213651--48214658 Score: 1928
Period size: 336 Copynumber: 3.0 Consensus size: 336
48213641 GTCACTGAAT
48213651 GAAAGTACTCAATCCGATTCAAATATTCATACTTTCACAATTATCTCAGCTTAATAACATTCATA
1 GAAAGTACTCAATCCGATTCAAATATTCATACTTTCACAATTATCTCAGCTTAATAACATTCATA
* *
48213716 GACAATACCATACCATAGCATTCATGAATTTTCATAACAATTCATTAAATTTAGCCATATGAACT
66 TACAATACCATACCATAGCATCCATGAATTTTCATAACAATTCATTAAATTTAGCCATATGAACT
* *
48213781 TACCTGGGCAAATTTGCAAAGGTTGTACAAGTTCATGGACTAATCGGCTA-TTTCTCTTTTCTAC
131 TACCTAGGCAAATTTGCAAAAGTTGTACAAGTTCATGGACTAATCGGCTATTTTCTCTTTTCTAC
48213845 GATTCACTTCGGGTTTTTGATCTATAATTGTAAAATCATTCATTTATTAGAATTCATTTCAATTT
196 GATTCACTTCGGGTTTTTGATCTATAATTGTAAAATCATTCATTTATTAGAATTCATTTCAATTT
*
48213910 TACTCTACTTCATAGTCTATACCCTTTATCCCCAAAATTACACTTTTGCCCTAAATTTTACAATT
261 TACTCTACTTCACAGTCTATACCCTTTATCCCCAAAATTACACTTTTGCCCTAAATTTTACAATT
48213975 TTTACAATTTA
326 TTTACAATTTA
48213986 GAAAGTACTCAATCCGATTCAAATATTCATACTTTCACAATTATCTCAGCTTAATAACATTCATA
1 GAAAGTACTCAATCCGATTCAAATATTCATACTTTCACAATTATCTCAGCTTAATAACATTCATA
48214051 TACAATACCATACCATAGCATCCATGAATTTTCATAACAATTCATTAAATTTAGCCATATGAACT
66 TACAATACCATACCATAGCATCCATGAATTTTCATAACAATTCATTAAATTTAGCCATATGAACT
48214116 TACCTAGGCAAATTTGCAAAAGTTGTACAAGTTCATGGACTAATCGGCTATTTTCTCTTTTCTAC
131 TACCTAGGCAAATTTGCAAAAGTTGTACAAGTTCATGGACTAATCGGCTATTTTCTCTTTTCTAC
48214181 GATTCACTTCGGGTTTTTGATCTATAATTGTAAAATCATTCATTTATTAGAATTCATTTCAATTT
196 GATTCACTTCGGGTTTTTGATCTATAATTGTAAAATCATTCATTTATTAGAATTCATTTCAATTT
48214246 TACTCTACTTCACAGTCTATACCCTTTATCCCCAAAATTACACTTTTGCCCTAAATTTTACAATT
261 TACTCTACTTCACAGTCTATACCCTTTATCCCCAAAATTACACTTTTGCCCTAAATTTTACAATT
48214311 TTTACAATTTA
326 TTTACAATTTA
48214322 GAAAGTACTCAATCCGATTCAAATATTCATACTTTCACAATTATCTCAGCTTAATAACATTCATA
1 GAAAGTACTCAATCCGATTCAAATATTCATACTTTCACAATTATCTCAGCTTAATAACATTCATA
*
48214387 TACAATACCATACCATAGCATCCATGAATTTTCATGACAATTCATTAAATTTAGCCATATGAACT
66 TACAATACCATACCATAGCATCCATGAATTTTCATAACAATTCATTAAATTTAGCCATATGAACT
*
48214452 TACCTAGGCAAATTTGCAAAAGTTGTACAAGTTCATGGACTAATCAGCTATTTTCTCTTTTCTAC
131 TACCTAGGCAAATTTGCAAAAGTTGTACAAGTTCATGGACTAATCGGCTATTTTCTCTTTTCTAC
* *
48214517 AATTCACTTCGAGTTTTTGATCTATAATTGTAAAATCATTCATTTATTAGAATTCATTTCAATTT
196 GATTCACTTCGGGTTTTTGATCTATAATTGTAAAATCATTCATTTATTAGAATTCATTTCAATTT
48214582 TACTCTACTTCACAGTCTATACCCTTTATCCCCAAAATTACACTTTTGCCCTAAATTTTACAATT
261 TACTCTACTTCACAGTCTATACCCTTTATCCCCAAAATTACACTTTTGCCCTAAATTTTACAATT
48214647 TTTACAATTTA
326 TTTACAATTTA
48214658 G
1 G
48214659 TCCTTGCTCA
Statistics
Matches: 663, Mismatches: 9, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
335 176 0.27
336 487 0.73
ACGTcount: A:0.33, C:0.20, G:0.08, T:0.38
Consensus pattern (336 bp):
GAAAGTACTCAATCCGATTCAAATATTCATACTTTCACAATTATCTCAGCTTAATAACATTCATA
TACAATACCATACCATAGCATCCATGAATTTTCATAACAATTCATTAAATTTAGCCATATGAACT
TACCTAGGCAAATTTGCAAAAGTTGTACAAGTTCATGGACTAATCGGCTATTTTCTCTTTTCTAC
GATTCACTTCGGGTTTTTGATCTATAATTGTAAAATCATTCATTTATTAGAATTCATTTCAATTT
TACTCTACTTCACAGTCTATACCCTTTATCCCCAAAATTACACTTTTGCCCTAAATTTTACAATT
TTTACAATTTA
Found at i:48220155 original size:41 final size:42
Alignment explanation
Indices: 48220110--48220194 Score: 109
Period size: 41 Copynumber: 2.0 Consensus size: 42
48220100 GATTTGTGGT
* *
48220110 CACGAAACCACTATTATGATTAGG-CCTAATTCGGGATATTA
1 CACGAAACCACTATTACGACTAGGCCCTAATTCGGGATATTA
* * * *
48220151 CACGAAACCACTGTTCCGACTAGGCCCTATTTCGGGATGTTA
1 CACGAAACCACTATTACGACTAGGCCCTAATTCGGGATATTA
48220193 CA
1 CA
48220195 TTTCTTCCCC
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
41 20 0.54
42 17 0.46
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (42 bp):
CACGAAACCACTATTACGACTAGGCCCTAATTCGGGATATTA
Found at i:48228447 original size:20 final size:19
Alignment explanation
Indices: 48228406--48228447 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
48228396 CCTTTCAAAT
*
48228406 TTTCTTACTTTCATTTGTA
1 TTTCTTACTTTCATTTGCA
48228425 TTTCATTACTTTCCA-TTGCA
1 TTTC-TTACTTT-CATTTGCA
48228445 TTT
1 TTT
48228448 ACTTTCTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 14 0.70
21 2 0.10
ACGTcount: A:0.17, C:0.19, G:0.05, T:0.60
Consensus pattern (19 bp):
TTTCTTACTTTCATTTGCA
Found at i:48240871 original size:11 final size:11
Alignment explanation
Indices: 48240865--48240907 Score: 77
Period size: 11 Copynumber: 3.9 Consensus size: 11
48240855 TGAAATTTTC
48240865 TCAAAATTCTA
1 TCAAAATTCTA
*
48240876 TCAAATTTCTA
1 TCAAAATTCTA
48240887 TCAAAATTCTA
1 TCAAAATTCTA
48240898 TCAAAATTCT
1 TCAAAATTCT
48240908 TTGTTTAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.40
Consensus pattern (11 bp):
TCAAAATTCTA
Found at i:48240876 original size:32 final size:33
Alignment explanation
Indices: 48240833--48240907 Score: 98
Period size: 32 Copynumber: 2.3 Consensus size: 33
48240823 AATATTCCCT
* ** * *
48240833 TCAAAAATCTATCAAATTTC-ATTGAAATTTTC
1 TCAAAATTCTATCAAATTTCTATCAAAATTCTA
48240865 TCAAAATTCTATCAAATTTCTATCAAAATTCTA
1 TCAAAATTCTATCAAATTTCTATCAAAATTCTA
48240898 TCAAAATTCT
1 TCAAAATTCT
48240908 TTGTTTAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
32 19 0.51
33 18 0.49
ACGTcount: A:0.41, C:0.17, G:0.01, T:0.40
Consensus pattern (33 bp):
TCAAAATTCTATCAAATTTCTATCAAAATTCTA
Found at i:48240890 original size:22 final size:22
Alignment explanation
Indices: 48240840--48240907 Score: 77
Period size: 22 Copynumber: 3.1 Consensus size: 22
48240830 CCTTCAAAAA
* *
48240840 TCTATCAAATTTC-ATTGAAATT
1 TCTATCAAAATTCTA-TCAAATT
*
48240862 T-TCTCAAAATTCTATCAAATT
1 TCTATCAAAATTCTATCAAATT
*
48240883 TCTATCAAAATTCTATCAAAAT
1 TCTATCAAAATTCTATCAAATT
48240905 TCT
1 TCT
48240908 TTGTTTAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
21 16 0.41
22 23 0.59
ACGTcount: A:0.38, C:0.18, G:0.01, T:0.43
Consensus pattern (22 bp):
TCTATCAAAATTCTATCAAATT
Found at i:48242146 original size:7 final size:7
Alignment explanation
Indices: 48242126--48242168 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
48242116 CATAATAAAA
48242126 TAGTCATT
1 TAGT-ATT
*
48242134 TTGTATT
1 TAGTATT
48242141 TAGTATT
1 TAGTATT
48242148 TAGTATT
1 TAGTATT
*
48242155 TAGCATT
1 TAGTATT
48242162 TAGTATT
1 TAGTATT
48242169 ATGTATTATG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
7 28 0.90
8 3 0.10
ACGTcount: A:0.26, C:0.05, G:0.14, T:0.56
Consensus pattern (7 bp):
TAGTATT
Found at i:48242155 original size:21 final size:20
Alignment explanation
Indices: 48242126--48242182 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 20
48242116 CATAATAAAA
48242126 TAGTCATTTTGTATTTAGTATT
1 TAGT-ATTTTGTATTTAGTA-T
* *
48242148 TAGTATTTAGCATTTAGTAT
1 TAGTATTTTGTATTTAGTAT
*
48242168 TATGTATTATGTATT
1 TA-GTATTTTGTATT
48242183 ATGTATATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 3 0.10
21 22 0.76
22 4 0.14
ACGTcount: A:0.26, C:0.04, G:0.14, T:0.56
Consensus pattern (20 bp):
TAGTATTTTGTATTTAGTAT
Found at i:48242174 original size:7 final size:7
Alignment explanation
Indices: 48242164--48242188 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
48242154 TTAGCATTTA
48242164 GTATTAT
1 GTATTAT
48242171 GTATTAT
1 GTATTAT
48242178 GTATTAT
1 GTATTAT
48242185 GTAT
1 GTAT
48242189 ATAAGTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (7 bp):
GTATTAT
Found at i:48249161 original size:12 final size:13
Alignment explanation
Indices: 48249144--48249172 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
48249134 CTCATACATG
48249144 AATAAATAAA-GC
1 AATAAATAAATGC
48249156 AATAAATAAATGC
1 AATAAATAAATGC
48249169 AATA
1 AATA
48249173 GTTATGGCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:48253713 original size:40 final size:40
Alignment explanation
Indices: 48253631--48253887 Score: 299
Period size: 40 Copynumber: 6.5 Consensus size: 40
48253621 AAGCCAAGTA
* * * *
48253631 CCTTCGGGATTTA-ACCGGATATAGCT-ACTTGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
48253669 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
48253709 CCTTCGAGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
48253749 CCTTCGGGACTTAGCCCGGATATAGTAACTCGGACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
48253789 CCTTTGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* * * *
48253829 CCTTTGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
48253869 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
48253888 TTATCATCCG
Statistics
Matches: 197, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
38 12 0.06
39 17 0.09
40 168 0.85
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:48269722 original size:27 final size:28
Alignment explanation
Indices: 48269692--48269789 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
48269682 ATATTAAGTC
*
48269692 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
* **
48269719 CGCACAGTTAGTATTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
48269747 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
48269776 CGCACACTTAGTGC
1 CGCACACTTAGTGC
48269790 CAATCTCATG
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
27 19 0.33
28 20 0.34
29 19 0.33
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:48269757 original size:28 final size:27
Alignment explanation
Indices: 48269692--48269758 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
48269682 ATATTAAGTC
* *
48269692 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTACTATATAATCAACT
* *
48269719 CGCACAGTTAGTATTATATAATCAAACT
1 CGCACACTTAGTACTATATAATC-AACT
48269747 CGCACACTTAGT
1 CGCACACTTAGT
48269759 GCTGTACAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 19 0.56
28 15 0.44
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTACTATATAATCAACT
Found at i:48272728 original size:37 final size:37
Alignment explanation
Indices: 48272678--48272756 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
48272668 TTATTACAAA
* *
48272678 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
48272715 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
48272752 GTCTT
1 GTCTT
48272757 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:48272953 original size:47 final size:47
Alignment explanation
Indices: 48272875--48273365 Score: 811
Period size: 47 Copynumber: 10.4 Consensus size: 47
48272865 CCCTTTGGGA
* * * * * * *
48272875 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
48272922 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48272969 CTTACCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48273016 CTTACCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48273063 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48273110 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48273157 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
**
48273206 CTTATCACATATATACACTTTCACATTCATCACATCGGATATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48273253 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48273300 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48273347 CTTATCACATATATACACT
1 CTTATCACATATATACACT
48273366 GTCTTGGTTG
Statistics
Matches: 420, Mismatches: 22, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 374 0.89
49 46 0.11
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Done.