Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 161 of 221
Found at i:48520194 original size:21 final size:21
Alignment explanation
Indices: 48520101--48520193 Score: 123
Period size: 21 Copynumber: 4.4 Consensus size: 21
48520091 TTTGACGCTG
*
48520101 CTCTGCTTCCCTCGCTACAGC
1 CTCTGCTTCCCTCGCTGCAGC
**
48520122 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGC
48520143 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * * *
48520164 CTGTACTTCTCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
48520185 CTCTGCTTC
1 CTCTGCTTC
48520194 TTTTGCTGCC
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 62 1.00
ACGTcount: A:0.05, C:0.45, G:0.16, T:0.33
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:48520201 original size:21 final size:21
Alignment explanation
Indices: 48520101--48520213 Score: 100
Period size: 21 Copynumber: 5.4 Consensus size: 21
48520091 TTTGACGCTG
* * *
48520101 CTCTGCTTCCCTCGCTACAGC
1 CTCTGCTTCTCTCGCTGCCGC
* ***
48520122 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCTCTCGCTGCCGC
* *
48520143 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCTCTCGCTGCCGC
* *
48520164 CTGTACTTCTCTCGCTGCCGC
1 CTCTGCTTCTCTCGCTGCCGC
* *
48520185 CTCTGCTTCTTTTGCTGCCGC
1 CTCTGCTTCTCTCGCTGCCGC
*
48520206 ATCTGCTT
1 CTCTGCTT
48520214 TAAGCTGCTG
Statistics
Matches: 79, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 79 1.00
ACGTcount: A:0.05, C:0.42, G:0.17, T:0.35
Consensus pattern (21 bp):
CTCTGCTTCTCTCGCTGCCGC
Found at i:48520268 original size:66 final size:66
Alignment explanation
Indices: 48520184--48520330 Score: 199
Period size: 66 Copynumber: 2.2 Consensus size: 66
48520174 CTCGCTGCCG
* * *
48520184 CCTCTGCTTCTTTTGCTGCCGCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTT
1 CCTCAGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTT
48520247 GAA
64 GAA
* * * *
48520250 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTCAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGA
1 CCTCAGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
48520315 A
66 A
48520316 CCTCAGCTTCTCTCG
1 CCTCAGCTTCTCTCG
48520331 ATGTTGCCTT
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
65 1 0.01
66 67 0.93
67 4 0.06
ACGTcount: A:0.12, C:0.29, G:0.18, T:0.41
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
A
Found at i:48520345 original size:66 final size:66
Alignment explanation
Indices: 48520204--48520353 Score: 205
Period size: 66 Copynumber: 2.3 Consensus size: 66
48520194 TTTTGCTGCC
* *
48520204 GCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGCTG
1 GCATCTGCTTTAAGTTG-TAGCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATG
48520268 CT
65 CT
* *
48520270 GCATCTGCTTTCAGTTGTAGCTGGAGTTCTTCATATCTTT-TTTGAACCTCAGCTTCTCTCGATG
1 GCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATA-CTTTCGTTGAACCTCAGCTTCTCTCGATG
*
48520334 TT
65 CT
* *
48520336 GCCTTTGCTTTAAGTTGT
1 GCATCTGCTTTAAGTTGT
48520354 GTAATTTGTT
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
65 1 0.01
66 69 0.93
67 4 0.05
ACGTcount: A:0.14, C:0.25, G:0.19, T:0.42
Consensus pattern (66 bp):
GCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATGC
T
Found at i:48523346 original size:25 final size:25
Alignment explanation
Indices: 48523295--48523367 Score: 74
Period size: 25 Copynumber: 2.7 Consensus size: 25
48523285 TAAGTTATGT
*
48523295 ATTATGTAAGTTATTTATTATGAAA
1 ATTATGTAAGTTATGTATTATGAAA
* *
48523320 ATTATGTAAGTTGTGTATTAGTCAAA
1 ATTATGTAAGTTATGTATTA-TGAAA
48523346 TTATGTTATGTAAGTTATGTAT
1 --A--TTATGTAAGTTATGTAT
48523368 GTCGTATAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
25 18 0.46
26 4 0.10
28 1 0.03
30 16 0.41
ACGTcount: A:0.34, C:0.01, G:0.16, T:0.48
Consensus pattern (25 bp):
ATTATGTAAGTTATGTATTATGAAA
Found at i:48523362 original size:9 final size:9
Alignment explanation
Indices: 48523350--48523814 Score: 107
Period size: 9 Copynumber: 52.9 Consensus size: 9
48523340 GTCAAATTAT
48523350 GTTATGTAA
1 GTTATGTAA
*
48523359 GTTATGTAT
1 GTTATGTAA
** *
48523368 GTCGTATAA
1 GTTATGTAA
48523377 GTTATGTAA
1 GTTATGTAA
48523386 G-T-TGTAA
1 GTTATGTAA
48523393 GTTATGTAA
1 GTTATGTAA
*
48523402 GTTAT-TTA
1 GTTATGTAA
*
48523410 -TTATGAAA
1 GTTATGTAA
* *
48523418 ATTAAGTAA
1 GTTATGTAA
48523427 GTTATGTAA
1 GTTATGTAA
* *
48523436 TTTACG-AA
1 GTTATGTAA
*
48523444 -TAAT-TAA
1 GTTATGTAA
***
48523451 AAAATTGTAA
1 GTTA-TGTAA
48523461 GTTATGTAA
1 GTTATGTAA
48523470 G-T-TGTAA
1 GTTATGTAA
48523477 GTTATGTAA
1 GTTATGTAA
48523486 G-T-TGTAA
1 GTTATGTAA
*
48523493 ATTATGTATA
1 GTTATGTA-A
*
48523503 -ATAT-TAA
1 GTTATGTAA
**
48523510 -TTAACTAA
1 GTTATGTAA
48523518 GTTATGTAA
1 GTTATGTAA
*
48523527 TTTATGTATAA
1 GTTATG--TAA
*
48523538 TATTAAT-TAA
1 -GTT-ATGTAA
48523548 -TTAAT-TAA
1 GTT-ATGTAA
48523556 GTTATGTAA
1 GTTATGTAA
* *
48523565 TTTATGTAT
1 GTTATGTAA
*
48523574 GTTAACTAATTAA
1 GTT-A-T--GTAA
48523587 GTTATGTAA
1 GTTATGTAA
*
48523596 TTTATG-AA
1 GTTATGTAA
*
48523604 -TAAT-TAAA
1 GTTATGT-AA
***
48523612 AAAATGTAA
1 GTTATGTAA
48523621 GTTATGTAA
1 GTTATGTAA
48523630 GTTATGTAA
1 GTTATGTAA
48523639 G-T-TGTAA
1 GTTATGTAA
48523646 GTTATGTATA
1 GTTATGTA-A
*
48523656 -ATAT-TAA
1 GTTATGTAA
**
48523663 -TTAACTAA
1 GTTATGTAA
48523671 GTTATGTAA
1 GTTATGTAA
*
48523680 TTTATGTATCA
1 GTTATGTA--A
*
48523691 TATTAATGTAA
1 -GTT-ATGTAA
48523702 GTTATGTAA
1 GTTATGTAA
**
48523711 CATATGTATA
1 GTTATGTA-A
*
48523721 -ATAT-TAA
1 GTTATGTAA
**
48523728 -TTAACTAA
1 GTTATGTAA
48523736 GTTATGTAA
1 GTTATGTAA
*
48523745 TTTATGTATCA
1 GTTATGTA--A
*
48523756 TATTAATGTAA
1 -GTT-ATGTAA
48523767 GTTATGTAA
1 GTTATGTAA
*
48523776 CTTATGT-A
1 GTTATGTAA
48523784 --TAT-TAA
1 GTTATGTAA
48523790 -TTAAT-TAA
1 GTT-ATGTAA
48523798 GTTATGTAA
1 GTTATGTAA
*
48523807 TTTATGTA
1 GTTATGTA
48523815 TAATATTAAT
Statistics
Matches: 344, Mismatches: 62, Indels: 100
0.68 0.12 0.20
Matches are distributed among these distances:
5 1 0.00
6 4 0.01
7 44 0.13
8 52 0.15
9 194 0.56
10 16 0.05
11 9 0.03
12 7 0.02
13 17 0.05
ACGTcount: A:0.39, C:0.02, G:0.14, T:0.45
Consensus pattern (9 bp):
GTTATGTAA
Found at i:48523393 original size:34 final size:31
Alignment explanation
Indices: 48523354--48523501 Score: 84
Period size: 34 Copynumber: 4.5 Consensus size: 31
48523344 AATTATGTTA
* *
48523354 TGTAAGTTATGTATGTCGTATAAGTTATGTAAGT
1 TGTAAGTTATGTATGT--TATAA-TTATGAAAAT
* *
48523388 TGTAAGTTATGTAAGTTATTTATTATGAAAAT
1 TGTAAGTTATGTATGTTA-TAATTATGAAAAT
*
48523420 TAAGTAAGTTATGTAAT-TTACGAATAATTA-AAAAAT
1 T--GTAAGTTATGT-ATGTT----ATAATTATGAAAAT
* * * *
48523456 TGTAAGTTATGTAAGTTGTAAGTTATGTAAGT
1 TGTAAGTTATGTATGTTATAA-TTATGAAAAT
*
48523488 TGTAAATTATGTAT
1 TGTAAGTTATGTAT
48523502 AATATTAATT
Statistics
Matches: 89, Mismatches: 14, Indels: 24
0.70 0.11 0.19
Matches are distributed among these distances:
30 3 0.03
31 3 0.03
32 26 0.29
33 3 0.03
34 41 0.46
35 1 0.01
36 6 0.07
37 5 0.06
38 1 0.01
ACGTcount: A:0.37, C:0.01, G:0.18, T:0.43
Consensus pattern (31 bp):
TGTAAGTTATGTATGTTATAATTATGAAAAT
Found at i:48523587 original size:31 final size:32
Alignment explanation
Indices: 48523488--48524183 Score: 313
Period size: 34 Copynumber: 21.2 Consensus size: 32
48523478 TTATGTAAGT
* * *
48523488 TGTAAATTATGTATAATATTAATTAACTAAGTTA
1 TGTAATTTATGTAT-A-ATTAAATAATTAAGTTA
48523522 TGTAATTTATGTATAATATTAATTAATTAATTAAGTTA
1 TGTAATTTATGTAT-A-ATT-A--AA-TAATTAAGTTA
* *
48523560 TGTAATTTATGTAT-GTTAACTAATTAAGTTA
1 TGTAATTTATGTATAATTAAATAATTAAGTTA
* *
48523591 TGTAATTTATGAATAATTAAAAAAATGTAAGTTA
1 TGTAATTTATGTATAATT-AAATAAT-TAAGTTA
* *
48523625 TGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTAA-TTA
1 TGTAATTTATGT-A----TAA-TTA--AAT-A-ATTAAGTTA
** * *
48523666 ACTAAGTTATGTAATTTATGTATCATATTAATGTAAGTTA
1 TGTAATTTATGT-A-TAAT-TA--A-A-TAAT-TAAGTTA
** * *
48523706 TGTAACATATGTATAATATTAATTAACTAAGTTA
1 TGTAATTTATGTAT-A-ATTAAATAATTAAGTTA
* *
48523740 TGTAATTTATGTATCA-T-ATTAATGTAAGTTA
1 TGTAATTTATGTATAATTAAATAAT-TAAGTTA
* *
48523771 TGTAACTTATGTAT-ATTAATTAATTAAGTTA
1 TGTAATTTATGTATAATTAAATAATTAAGTTA
*
48523802 TGTAATTTATGTATAA-T-ATTAATGTAAGTTA
1 TGTAATTTATGTATAATTAAATAAT-TAAGTTA
* * ** * * *
48523833 TGTATAATAACATAAAATTAAGTAATGTAATTTA
1 TGTA-ATTTATGTATAATTAAATAAT-TAAGTTA
* * *
48523867 TGT-A-TAATAT-TAATTAATTAATTAAGTTA
1 TGTAATTTATGTATAATTAAATAATTAAGTTA
*
48523896 TGTAATTTATGTATAA-T-ATTAATGTAAGTTA
1 TGTAATTTATGTATAATTAAATAAT-TAAGTTA
*
48523927 TGT-A--TAAG-A-ACA-T-AA-AATTAAGTTA
1 TGTAATTTATGTATA-ATTAAATAATTAAGTTA
* *
48523952 TGTAATTTATGTATAATATTAATTAACTAAGTTA
1 TGTAATTTATGTAT-A-ATTAAATAATTAAGTTA
48523986 TGTAATTTATGTATAATATTAATTAATTAATTAAGTTA
1 TGTAATTTATGTAT-A-ATT-A--AA-TAATTAAGTTA
*
48524024 TGTAATTTATGTATAA-T-ATTAATGTAAGTTA
1 TGTAATTTATGTATAATTAAATAAT-TAAGTTA
*
48524055 TGT-A--TAAG-A-ACA-T-AA-AATTAAGTTA
1 TGTAATTTATGTATA-ATTAAATAATTAAGTTA
* *
48524080 TGTAATTTATGTATAATATTAATTAACTAAGTTA
1 TGTAATTTATGTAT-A-ATTAAATAATTAAGTTA
* *
48524114 TGTAATTTATGTATAA-T-ATTAATGTATGTTA
1 TGTAATTTATGTATAATTAAATAAT-TAAGTTA
* *
48524145 TGTAATTTATGAATAATTAAAAAAATGTAAGTTA
1 TGTAATTTATGTATAATT-AAATAAT-TAAGTTA
48524179 TGTAA
1 TGTAA
48524184 GTTGTAAGTT
Statistics
Matches: 531, Mismatches: 66, Indels: 130
0.73 0.09 0.18
Matches are distributed among these distances:
25 20 0.04
26 10 0.02
27 8 0.02
28 12 0.02
29 11 0.02
30 40 0.08
31 135 0.25
32 26 0.05
33 9 0.02
34 139 0.26
35 9 0.02
36 1 0.00
37 5 0.01
38 56 0.11
39 12 0.02
40 16 0.03
41 16 0.03
42 4 0.01
43 2 0.00
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.45
Consensus pattern (32 bp):
TGTAATTTATGTATAATTAAATAATTAAGTTA
Found at i:48523646 original size:16 final size:18
Alignment explanation
Indices: 48523284--48523814 Score: 114
Period size: 16 Copynumber: 30.2 Consensus size: 18
48523274 ACTAAGCTAC
48523284 GTAAGTTATGT-A-TTAT
1 GTAAGTTATGTAAGTTAT
*
48523300 GTAAGTTAT-TTA-TTAT
1 GTAAGTTATGTAAGTTAT
* * *
48523316 GAAAATTATGTAAGTTGT
1 GTAAGTTATGTAAGTTAT
* *
48523334 GTATTAGTCAAAT-TATGTTAT
1 GTA--AGT--TATGTAAGTTAT
* **
48523355 GTAAGTTATGTATGTCGT
1 GTAAGTTATGTAAGTTAT
*
48523373 ATAAGTTATGTAAG-T-T
1 GTAAGTTATGTAAGTTAT
48523389 GTAAGTTATGTAAGTTAT
1 GTAAGTTATGTAAGTTAT
* * * *
48523407 -TTA-TTATGAAAATTAA
1 GTAAGTTATGTAAGTTAT
* *
48523423 GTAAGTTATGTAATTTAC
1 GTAAGTTATGTAAGTTAT
* ***
48523441 G-AA-TAAT-TAAAAAATT
1 GTAAGTTATGTAAGTTA-T
48523457 GTAAGTTATGTAAG-T-T
1 GTAAGTTATGTAAGTTAT
48523473 GTAAGTTATGTAAG-T-T
1 GTAAGTTATGTAAGTTAT
* *
48523489 GTAAATTATGTATA-ATAT
1 GTAAGTTATGTA-AGTTAT
**
48523507 -TAA-TTAACTAAGTTAT
1 GTAAGTTATGTAAGTTAT
* *
48523523 GTAATTTATGTATAATATTAAT
1 GTAAGTTATG--TAA-GTT-AT
48523545 -TAA-TTAAT-TAAGTTAT
1 GTAAGTT-ATGTAAGTTAT
* *
48523561 GTAATTTATGTATGTTAACT
1 GTAAGTTATGTAAGTT-A-T
* *
48523581 AATTAAGTTATGTAATTTAT
1 --GTAAGTTATGTAAGTTAT
* ***
48523601 G-AA-TAAT-TAAAAAAAT
1 GTAAGTTATGT-AAGTTAT
48523617 GTAAGTTATGTAAGTTAT
1 GTAAGTTATGTAAGTTAT
48523635 GTAAG-T-TGTAAGTTAT
1 GTAAGTTATGTAAGTTAT
* *
48523651 GTATA-ATAT-TAA-TTAA
1 GTA-AGTTATGTAAGTTAT
* *
48523667 CTAAGTTATGTAATTTAT
1 GTAAGTTATGTAAGTTAT
*
48523685 GTATCATATTAATGTAAGTTAT
1 GTA--A-GTT-ATGTAAGTTAT
** *
48523707 GTAACATATGTATA-ATAT
1 GTAAGTTATGTA-AGTTAT
**
48523725 -TAA-TTAACTAAGTTAT
1 GTAAGTTATGTAAGTTAT
* *
48523741 GTAATTTATGTATCATATTAAT
1 GTAAGTTATGTA--A-GTT-AT
*
48523763 GTAAGTTATGTAACTTAT
1 GTAAGTTATGTAAGTTAT
48523781 GT-A--TAT-TAA-TTAAT
1 GTAAGTTATGTAAGTT-AT
*
48523795 -TAAGTTATGTAATTTAT
1 GTAAGTTATGTAAGTTAT
48523812 GTA
1 GTA
48523815 TAATATTAAT
Statistics
Matches: 379, Mismatches: 73, Indels: 124
0.66 0.13 0.22
Matches are distributed among these distances:
13 3 0.01
14 6 0.02
15 12 0.03
16 126 0.33
17 53 0.14
18 91 0.24
19 12 0.03
20 13 0.03
21 21 0.06
22 42 0.11
ACGTcount: A:0.39, C:0.02, G:0.14, T:0.45
Consensus pattern (18 bp):
GTAAGTTATGTAAGTTAT
Found at i:48523679 original size:34 final size:34
Alignment explanation
Indices: 48523641--48524249 Score: 437
Period size: 34 Copynumber: 19.2 Consensus size: 34
48523631 TTATGTAAGT
* *
48523641 TGTAAGTTATGTATAATATTAATTAACTAAGTTA
1 TGTAATTTATGTATAATATTAATTAAGTAAGTTA
*
48523675 TGTAATTTATGTATCATATTAA-T--GTAAGTTA
1 TGTAATTTATGTATAATATTAATTAAGTAAGTTA
** *
48523706 TGTAACATATGTATAATATTAATTAACTAAGTTA
1 TGTAATTTATGTATAATATTAATTAAGTAAGTTA
*
48523740 TGTAATTTATGTATCATATTAA-T--GTAAGTTA
1 TGTAATTTATGTATAATATTAATTAAGTAAGTTA
* *
48523771 TGTAACTTATG--T-ATATTAATTAATTAAGTTA
1 TGTAATTTATGTATAATATTAATTAAGTAAGTTA
48523802 TGTAATTTATGTATAATATTAA-T--GTAAGTTA
1 TGTAATTTATGTATAATATTAATTAAGTAAGTTA
* * *
48523833 TGT-A--TA---ATAACA-TAA--AATTAAGTAA
1 TGTAATTTATGTATAATATTAATTAAGTAAGTTA
*
48523858 TGTAATTTATGTATAATATTAATTAATTAATTAAGTTA
1 TGTAATTTATGTAT-A-A-T-ATTAATTAAGTAAGTTA
48523896 TGTAATTTATGTATAATATTAA-T--GTAAGTTA
1 TGTAATTTATGTATAATATTAATTAAGTAAGTTA
* * *
48523927 TGT-A--TA---AGAACA-TAA--AATTAAGTTA
1 TGTAATTTATGTATAATATTAATTAAGTAAGTTA
*
48523952 TGTAATTTATGTATAATATTAATTAACTAAGTTA
1 TGTAATTTATGTATAATATTAATTAAGTAAGTTA
*
48523986 TGTAATTTATGTATAATATTAATTAATTAATTAAGTTA
1 TGTAATTTATGTAT-A-A-T-ATTAATTAAGTAAGTTA
48524024 TGTAATTTATGTATAATATTAA-T--GTAAGTTA
1 TGTAATTTATGTATAATATTAATTAAGTAAGTTA
* * *
48524055 TGT-A--TA---AGAACA-TAA--AATTAAGTTA
1 TGTAATTTATGTATAATATTAATTAAGTAAGTTA
*
48524080 TGTAATTTATGTATAATATTAATTAACTAAGTTA
1 TGTAATTTATGTATAATATTAATTAAGTAAGTTA
*
48524114 TGTAATTTATGTATAATATTAA-T--GTATGTTA
1 TGTAATTTATGTATAATATTAATTAAGTAAGTTA
* * **
48524145 TGTAATTTATGAATAAT-TAAAAAAATGTAAGTTA
1 TGTAATTTATGTATAATATTAATTAA-GTAAGTTA
* * *
48524179 TGTAAGTTGTAAGT-T-ATA--AGTTATGTAAG-T-
1 TGTAA-TT-TATGTATAATATTAATTAAGTAAGTTA
* * *
48524209 TGTCAGTTATGTATAATATTAATTAACTAAGTTA
1 TGTAATTTATGTATAATATTAATTAAGTAAGTTA
48524243 TGTAATT
1 TGTAATT
48524250 AGAGATGGGT
Statistics
Matches: 457, Mismatches: 55, Indels: 126
0.72 0.09 0.20
Matches are distributed among these distances:
24 9 0.02
25 42 0.09
26 3 0.01
28 23 0.05
29 4 0.01
30 13 0.03
31 123 0.27
32 21 0.05
33 11 0.02
34 136 0.30
35 7 0.02
36 9 0.02
37 3 0.01
38 53 0.12
ACGTcount: A:0.41, C:0.02, G:0.11, T:0.45
Consensus pattern (34 bp):
TGTAATTTATGTATAATATTAATTAAGTAAGTTA
Found at i:48523706 original size:22 final size:22
Alignment explanation
Indices: 48523674--48523837 Score: 75
Period size: 22 Copynumber: 7.7 Consensus size: 22
48523664 TAACTAAGTT
*
48523674 ATGTAATTTATGTATCATATTA
1 ATGTAAGTTATGTATCATATTA
*
48523696 ATGTAAGTTATGTAACATATGT-
1 ATGTAAGTTATGTATCATAT-TA
* *
48523718 A--TAATATTAAT-TAAC-TAAGTT-
1 ATGTAA-GTT-ATGTATCAT-A-TTA
*
48523739 ATGTAATTTATGTATCATATTA
1 ATGTAAGTTATGTATCATATTA
* *
48523761 ATGTAAGTTATGTAACTTATGTA
1 ATGTAAGTTATGTATCATAT-TA
*
48523784 TAT-TAA-TTAAT-TA--A-GTT-
1 -ATGTAAGTT-ATGTATCATATTA
* *
48523801 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATCATATTA
48523823 ATGTAAGTTATGTAT
1 ATGTAAGTTATGTAT
48523838 AATAACATAA
Statistics
Matches: 110, Mismatches: 12, Indels: 40
0.68 0.07 0.25
Matches are distributed among these distances:
16 2 0.02
17 5 0.05
18 5 0.05
19 1 0.01
20 5 0.05
21 15 0.14
22 63 0.57
23 12 0.11
24 2 0.02
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (22 bp):
ATGTAAGTTATGTATCATATTA
Found at i:48523765 original size:128 final size:130
Alignment explanation
Indices: 48523488--48524249 Score: 569
Period size: 128 Copynumber: 6.1 Consensus size: 130
48523478 TTATGTAAGT
* * * *
48523488 TGTAAATTATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATAATATTAATTAATTAAT
1 TGTAATTTATGTATAATATTAA-T--GTAAGTTATGTAAGTTATGTAT-A-A-T-ATTAATTAAG
* ** * *
48523553 TAAGTTATGTAATTTATGTATGTTAACTAAT-TAAGTTATGTAATTTATGAAT-A-ATTAA--AA
59 TAAGTTATGTAATTTAAGTATCAT-ATTAATGTAAGTTATGTAATTTATGTATAATATTAATTAA
48523613 --AA---A
123 CTAAGTTA
* * *
48523616 TGTAAGTTATG--TAA-GTT-ATGTAAG-T-TGTAAGTTATGTATAATATTAATTAACTAAGTTA
1 TGTAATTTATGTATAATATTAATGTAAGTTATGTAAGTTATGTATAATATTAATTAAGTAAGTTA
* **
48523675 TGTAATTTATGTATCATATTAATGTAAGTTATGTAACATATGTATAATATTAATTAACTAAGTTA
66 TGTAATTTAAGTATCATATTAATGTAAGTTATGTAATTTATGTATAATATTAATTAACTAAGTTA
* * *
48523740 TGTAATTTATGTATCATATTAATGTAAGTTATGTAACTTATG--T-ATATTAATTAATTAAGTTA
1 TGTAATTTATGTATAATATTAATGTAAGTTATGTAAGTTATGTATAATATTAATTAAGTAAGTTA
* * * ** * * * *
48523802 TGTAATTTATGTATAATATTAATGTAAGTTATGT-A-TAATAACATAAAATTAAGTAATGTAATT
66 TGTAATTTAAGTATCATATTAATGTAAGTTATGTAATTTAT-GTATAATATTAATTAA-CTAAGT
48523865 TA
129 TA
* * *
48523867 TGT-ATAATAT-TA-ATTAATTAAT-TAAGTTATGTAATTTATGTATAATATTAA-T--GTAAGT
1 TGTAAT-TTATGTATAAT-ATTAATGTAAGTTATGTAAGTTATGTATAATATTAATTAAGTAAGT
* *
48523925 TATGT-A--TAAG-AACATA-AAAT-TAAGTTATGTAATTTATGTATAATATTAATTAACTAAGT
64 TATGTAATTTAAGTATCATATTAATGTAAGTTATGTAATTTATGTATAATATTAATTAACTAAGT
48523984 TA
129 TA
* *
48523986 TGTAATTTATGTATAATATTAAT-TAA-TTAAT-TAAGTTATGTAATTTATGTATAATATTAATG
1 TGTAATTTATGTATAATATTAATGTAAGTT-ATGTAAGTTATGT-A--TA-ATATTA-ATTAA-G
* *
48524048 TAAGTTATGT-A--TAAG-AACATA-AAAT-TAAGTTATGTAATTTATGTATAATATTAATTAAC
59 TAAGTTATGTAATTTAAGTATCATATTAATGTAAGTTATGTAATTTATGTATAATATTAATTAAC
48524107 TAAGTTA
124 TAAGTTA
* * * * **
48524114 TGTAATTTATGTATAATATTAATGTATGTTATGTAATTTATGAATAAT-TAAAAAAATGTAAGTT
1 TGTAATTTATGTATAATATTAATGTAAGTTATGTAAGTTATGTATAATATTAATTAA-GTAAGTT
* *
48524178 ATGTAAGTTGTAAGT-T-ATAAGTT-ATGTAAG-T-TGTCAGTTATGTATAATATTAATTAACTA
65 ATGTAA-TT-TAAGTATCAT-A-TTAATGTAAGTTATGTAATTTATGTATAATATTAATTAACTA
48524238 AGTTA
126 AGTTA
48524243 TGTAATT
1 TGTAATT
48524250 AGAGATGGGT
Statistics
Matches: 527, Mismatches: 56, Indels: 101
0.77 0.08 0.15
Matches are distributed among these distances:
114 5 0.01
115 49 0.09
116 2 0.00
117 6 0.01
118 1 0.00
119 48 0.09
120 33 0.06
121 15 0.03
122 5 0.01
123 5 0.01
124 29 0.06
125 37 0.07
126 29 0.06
127 69 0.13
128 117 0.22
129 50 0.09
130 23 0.04
131 4 0.01
ACGTcount: A:0.41, C:0.02, G:0.12, T:0.45
Consensus pattern (130 bp):
TGTAATTTATGTATAATATTAATGTAAGTTATGTAAGTTATGTATAATATTAATTAAGTAAGTTA
TGTAATTTAAGTATCATATTAATGTAAGTTATGTAATTTATGTATAATATTAATTAACTAAGTTA
Found at i:48523838 original size:22 final size:22
Alignment explanation
Indices: 48523739--48523841 Score: 76
Period size: 22 Copynumber: 4.9 Consensus size: 22
48523729 TAACTAAGTT
* *
48523739 ATGTAATTTATGTATCATATTA
1 ATGTAAGTTATGTATAATATTA
*
48523761 ATGTAAGTTATGTA-ACTTATGTA
1 ATGTAAGTTATGTATA-ATAT-TA
* *
48523784 TAT-TAA-TTA-AT-TAA-GTT-
1 -ATGTAAGTTATGTATAATATTA
*
48523801 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
48523823 ATGTAAGTTATGTATAATA
1 ATGTAAGTTATGTATAATA
48523842 ACATAAAATT
Statistics
Matches: 62, Mismatches: 9, Indels: 20
0.68 0.10 0.22
Matches are distributed among these distances:
16 2 0.03
17 3 0.05
18 4 0.06
19 2 0.03
20 3 0.05
21 4 0.06
22 37 0.60
23 5 0.08
24 2 0.03
ACGTcount: A:0.39, C:0.02, G:0.12, T:0.48
Consensus pattern (22 bp):
ATGTAAGTTATGTATAATATTA
Found at i:48523918 original size:17 final size:17
Alignment explanation
Indices: 48523860--48523918 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 17
48523850 TTAAGTAATG
48523860 TAATTTATGTATAATAT
1 TAATTTATGTATAATAT
*
48523877 TAATTAAT-TAATTAAGTTAT
1 TAATTTATGT-A-TAA--TAT
48523897 GTAATTTATGTATAATAT
1 -TAATTTATGTATAATAT
48523915 TAAT
1 TAAT
48523919 GTAAGTTATG
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
16 1 0.03
17 12 0.35
18 6 0.18
20 6 0.18
21 8 0.24
22 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (17 bp):
TAATTTATGTATAATAT
Found at i:48523965 original size:56 final size:56
Alignment explanation
Indices: 48523886--48524102 Score: 263
Period size: 56 Copynumber: 3.6 Consensus size: 56
48523876 TTAATTAATT
48523886 AATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATAAGAACATAA
1 AATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATAAGAACATAA
* * *
48523942 AATTAAGTTATGTAATTTATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATAATATTA
1 AATTAAGTTATGTAATTTATGTATAATATTAA-T--GTAAGTTATGT-A--TA---A-GA-A--C
48524007 ATTAA
53 A-TAA
48524012 TTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATAAGAACATAA
1 --AATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATAAGAACATAA
48524070 AATTAAGTTATGTAATTTATGTATAATATTAAT
1 AATTAAGTTATGTAATTTATGTATAATATTAAT
48524103 TAACTAAGTT
Statistics
Matches: 139, Mismatches: 6, Indels: 32
0.79 0.03 0.18
Matches are distributed among these distances:
56 65 0.47
57 1 0.01
58 3 0.02
59 11 0.08
60 1 0.01
61 1 0.01
62 3 0.02
63 1 0.01
65 1 0.01
66 3 0.02
67 1 0.01
68 1 0.01
69 11 0.08
70 3 0.02
71 1 0.01
72 32 0.23
ACGTcount: A:0.43, C:0.01, G:0.11, T:0.45
Consensus pattern (56 bp):
AATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATAAGAACATAA
Found at i:48524012 original size:94 final size:90
Alignment explanation
Indices: 48523764--48524008 Score: 397
Period size: 94 Copynumber: 2.7 Consensus size: 90
48523754 CATATTAATG
*
48523764 TAAGTTATGTAACTTATG--T-ATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATG
1 TAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATG
*
48523826 TAAGTTATGTATAATAACATAAAAT
66 TAAGTTATGTATAAGAACATAAAAT
*
48523851 TAAGTAATGTAATTTATGTATAATATTAATTAATTAATTAAGTTATGTAATTTATGTATAATATT
1 TAAGTTATGTAATTTATGTAT-A-A-T-ATTAATTAATTAAGTTATGTAATTTATGTATAATATT
48523916 AATGTAAGTTATGTATAAGAACATAAAAT
62 AATGTAAGTTATGTATAAGAACATAAAAT
*
48523945 TAAGTTATGTAATTTATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATAATATTAAT
1 TAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAAT
48524009 TAATTAATTA
Statistics
Matches: 146, Mismatches: 5, Indels: 11
0.90 0.03 0.07
Matches are distributed among these distances:
87 16 0.11
89 1 0.01
90 39 0.27
91 1 0.01
92 2 0.01
93 2 0.01
94 85 0.58
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (90 bp):
TAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATG
TAAGTTATGTATAAGAACATAAAAT
Found at i:48524145 original size:90 final size:94
Alignment explanation
Indices: 48523979--48524148 Score: 294
Period size: 90 Copynumber: 1.9 Consensus size: 94
48523969 ATTAATTAAC
*
48523979 TAAGTTATGTAATTTATGTATAATATTAATTAATTAATTAAGTTATGTAATTTATGTATAATATT
1 TAAGTTATGTAATTTATGTATAATATTAATTAATTAACTAAGTTATGTAATTTATGTATAATATT
48524044 AATGTAAGTTATGTATAAGAACATAAAAT
66 AATGTAAGTTATGTATAAGAACATAAAAT
48524073 TAAGTTATGTAATTTATGTAT-A-A-T-ATTAATTAACTAAGTTATGTAATTTATGTATAATATT
1 TAAGTTATGTAATTTATGTATAATATTAATTAATTAACTAAGTTATGTAATTTATGTATAATATT
*
48524134 AATGTATGTTATGTA
66 AATGTAAGTTATGTA
48524149 ATTTATGAAT
Statistics
Matches: 74, Mismatches: 2, Indels: 4
0.93 0.03 0.05
Matches are distributed among these distances:
90 50 0.68
91 1 0.01
92 1 0.01
93 1 0.01
94 21 0.28
ACGTcount: A:0.41, C:0.01, G:0.11, T:0.46
Consensus pattern (94 bp):
TAAGTTATGTAATTTATGTATAATATTAATTAATTAACTAAGTTATGTAATTTATGTATAATATT
AATGTAAGTTATGTATAAGAACATAAAAT
Found at i:48524180 original size:90 final size:87
Alignment explanation
Indices: 48523984--48524182 Score: 222
Period size: 90 Copynumber: 2.2 Consensus size: 87
48523974 TTAACTAAGT
* *
48523984 TATGTAATTTATGTATAATATTAATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGT
1 TATGTAAGTTATGTAT-A-A-T-ATTAATTAACTAAGTTATGTAATTTATGTATAATATTAATGT
*
48524049 AAGTTATGTATAAGAACATAAAATTAA
62 AAGTTATGTATAAGAAAATAAAA-TAA
* *
48524076 GTTATGTAATTTATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATAATATTAATGTAT
1 --TATGTAAGTTATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATAATATTAATGTAA
*
48524141 GTTATGTAATTTATGAATAATTAAAA-AA
64 GTTATGT-A--TAAGAA-AA-TAAAATAA
48524169 -ATGTAAGTTATGTA
1 TATGTAAGTTATGTA
48524183 AGTTGTAAGT
Statistics
Matches: 95, Mismatches: 5, Indels: 14
0.83 0.04 0.12
Matches are distributed among these distances:
90 62 0.65
91 2 0.02
92 1 0.01
93 8 0.08
94 17 0.18
95 5 0.05
ACGTcount: A:0.43, C:0.01, G:0.11, T:0.45
Consensus pattern (87 bp):
TATGTAAGTTATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATAATATTAATGTAAGT
TATGTATAAGAAAATAAAATAA
Found at i:48524191 original size:16 final size:16
Alignment explanation
Indices: 48524169--48524221 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
48524159 AATTAAAAAA
48524169 ATGTAAGTTATGTAAG-T
1 ATGTAAG-T-TGTAAGTT
*
48524186 -TGTAAGTTATAAGTT
1 ATGTAAGTTGTAAGTT
*
48524201 ATGTAAGTTGTCAGTT
1 ATGTAAGTTGTAAGTT
48524217 ATGTA
1 ATGTA
48524222 TAATATTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
14 5 0.16
15 2 0.06
16 24 0.77
ACGTcount: A:0.32, C:0.02, G:0.23, T:0.43
Consensus pattern (16 bp):
ATGTAAGTTGTAAGTT
Found at i:48524199 original size:23 final size:23
Alignment explanation
Indices: 48524172--48524218 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
48524162 TAAAAAAATG
48524172 TAAGTTATGTAAGTTGTAAGTTA
1 TAAGTTATGTAAGTTGTAAGTTA
*
48524195 TAAGTTATGTAAGTTGTCAGTTA
1 TAAGTTATGTAAGTTGTAAGTTA
48524218 T
1 T
48524219 GTATAATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.45
Consensus pattern (23 bp):
TAAGTTATGTAAGTTGTAAGTTA
Found at i:48529097 original size:41 final size:41
Alignment explanation
Indices: 48529028--48529412 Score: 429
Period size: 41 Copynumber: 9.4 Consensus size: 41
48529018 GCGCCTCGGT
* * * *
48529028 AAAAACGCCGCTAAAGGT-CAATACATTAGCGGCGCTTAGAT
1 AAAAACGCCGCTAAAGATCCGA-GCATTAGCGGCGCTTAGAC
* * * * * * * **
48529069 ACAAATGCCGCTGAAGA-CAAGAGAATTAGTGGCGCTCAGTT
1 AAAAACGCCGCTAAAGATC-CGAGCATTAGCGGCGCTTAGAC
* *
48529110 AAAAACGCCGCTAAAGATCCGAGTATTAGCGGCGCTT-GTAT
1 AAAAACGCCGCTAAAGATCCGAGCATTAGCGGCGCTTAG-AC
* *
48529151 AAAAACGCCGCTAAAGATCCGAGCACTAGCGGCGCATAGAC
1 AAAAACGCCGCTAAAGATCCGAGCATTAGCGGCGCTTAGAC
* * *
48529192 AAAAACGCCGCTAAAGATTCGAGCATTAGCGGCGCCTACAC
1 AAAAACGCCGCTAAAGATCCGAGCATTAGCGGCGCTTAGAC
* *
48529233 GAAAACGCCGCTAAAGA-CTCGAGCATTAGCGGCGCATAGAC
1 AAAAACGCCGCTAAAGATC-CGAGCATTAGCGGCGCTTAGAC
* *
48529274 AAAAACGCCGCTAAAGATCCGAGCATTAGCGGCGCCTACAC
1 AAAAACGCCGCTAAAGATCCGAGCATTAGCGGCGCTTAGAC
* *
48529315 GAAAACGCCGCTAAAGA-CTCGAGCATTAGCGGCGCCTAGAC
1 AAAAACGCCGCTAAAGATC-CGAGCATTAGCGGCGCTTAGAC
* * *
48529356 AAAAATGCCGCTAAAGATCTGAGCATTAGCGGCGCTTACAC
1 AAAAACGCCGCTAAAGATCCGAGCATTAGCGGCGCTTAGAC
48529397 AAAAACGCCGCTAAAG
1 AAAAACGCCGCTAAAG
48529413 GTTTAAAAAT
Statistics
Matches: 293, Mismatches: 42, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
40 2 0.01
41 286 0.98
42 5 0.02
ACGTcount: A:0.35, C:0.26, G:0.24, T:0.15
Consensus pattern (41 bp):
AAAAACGCCGCTAAAGATCCGAGCATTAGCGGCGCTTAGAC
Found at i:48529161 original size:82 final size:82
Alignment explanation
Indices: 48529028--48529412 Score: 479
Period size: 82 Copynumber: 4.7 Consensus size: 82
48529018 GCGCCTCGGT
* * * * * * * * **
48529028 AAAAACGCCGCTAAAGGT-CAATACATTAGCGGCGCTTAGATACAAATGCCGCTGAAGACAAGAG
1 AAAAACGCCGCTAAAGATCCGA-GCATTAGCGGCGCTTACACAAAAACGCCGCTAAAGACTCGAG
* * **
48529092 AATTAGTGGCGC-TCAGTT
65 CATTAGCGGCGCAT-AGAC
* ** *
48529110 AAAAACGCCGCTAAAGATCCGAGTATTAGCGGCGCTTGTATAAAAACGCCGCTAAAGA-TCCGAG
1 AAAAACGCCGCTAAAGATCCGAGCATTAGCGGCGCTTACACAAAAACGCCGCTAAAGACT-CGAG
*
48529174 CACTAGCGGCGCATAGAC
65 CATTAGCGGCGCATAGAC
* * *
48529192 AAAAACGCCGCTAAAGATTCGAGCATTAGCGGCGCCTACACGAAAACGCCGCTAAAGACTCGAGC
1 AAAAACGCCGCTAAAGATCCGAGCATTAGCGGCGCTTACACAAAAACGCCGCTAAAGACTCGAGC
48529257 ATTAGCGGCGCATAGAC
66 ATTAGCGGCGCATAGAC
* *
48529274 AAAAACGCCGCTAAAGATCCGAGCATTAGCGGCGCCTACACGAAAACGCCGCTAAAGACTCGAGC
1 AAAAACGCCGCTAAAGATCCGAGCATTAGCGGCGCTTACACAAAAACGCCGCTAAAGACTCGAGC
*
48529339 ATTAGCGGCGCCTAGAC
66 ATTAGCGGCGCATAGAC
* *
48529356 AAAAATGCCGCTAAAGATCTGAGCATTAGCGGCGCTTACACAAAAACGCCGCTAAAG
1 AAAAACGCCGCTAAAGATCCGAGCATTAGCGGCGCTTACACAAAAACGCCGCTAAAG
48529413 GTTTAAAAAT
Statistics
Matches: 269, Mismatches: 30, Indels: 8
0.88 0.10 0.03
Matches are distributed among these distances:
82 265 0.99
83 4 0.01
ACGTcount: A:0.35, C:0.26, G:0.24, T:0.15
Consensus pattern (82 bp):
AAAAACGCCGCTAAAGATCCGAGCATTAGCGGCGCTTACACAAAAACGCCGCTAAAGACTCGAGC
ATTAGCGGCGCATAGAC
Found at i:48545878 original size:18 final size:17
Alignment explanation
Indices: 48545857--48545894 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
48545847 ATATTAAGAA
*
48545857 TTTTATTAAATTATATAT
1 TTTTACTAAATTATAT-T
48545875 TTTTACTAAATTATATT
1 TTTTACTAAATTATATT
48545892 TTT
1 TTT
48545895 AATAATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTTACTAAATTATATT
Found at i:48546000 original size:18 final size:17
Alignment explanation
Indices: 48545979--48546016 Score: 67
Period size: 18 Copynumber: 2.2 Consensus size: 17
48545969 ATATTAAGAA
48545979 TTTTATTAAATTATATAT
1 TTTTATTAAATTATAT-T
48545997 TTTTATTAAATTATATT
1 TTTTATTAAATTATATT
48546014 TTT
1 TTT
48546017 AATAATAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTATTAAATTATATT
Found at i:48546013 original size:16 final size:16
Alignment explanation
Indices: 48545979--48546043 Score: 66
Period size: 16 Copynumber: 4.2 Consensus size: 16
48545969 ATATTAAGAA
48545979 TTTTATTAAATTATATAT
1 TTTTATTAAA-T-TATAT
48545997 TTTTATTAAATTATAT
1 TTTTATTAAATTATAT
*
48546013 TTTTAAT-AA-TA-AT
1 TTTTATTAAATTATAT
*
48546026 TATT-TTAAATTATAT
1 TTTTATTAAATTATAT
48546041 TTT
1 TTT
48546044 ATAGTATTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
12 1 0.03
13 7 0.17
14 4 0.10
15 6 0.15
16 11 0.28
17 1 0.03
18 10 0.25
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTTATTAAATTATAT
Found at i:48546234 original size:17 final size:18
Alignment explanation
Indices: 48546214--48546254 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
48546204 ATATTTAAAT
48546214 ATTA-AGAATTTTATTAA
1 ATTATAGAATTTTATTAA
* *
48546231 ATTATATATTTTTATTAA
1 ATTATAGAATTTTATTAA
48546249 ATTATA
1 ATTATA
48546255 TTTAATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
ATTATAGAATTTTATTAA
Found at i:48546245 original size:18 final size:18
Alignment explanation
Indices: 48546222--48546375 Score: 71
Period size: 18 Copynumber: 7.9 Consensus size: 18
48546212 ATATTAAGAA
48546222 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
48546240 TTTTATTAAATTATATTTAAT
1 TTTTATTAAATTATA--T-AT
*
48546261 AATAATTATTTTAAATTATAT-T
1 --T--TT-TATTAAATTATATAT
* *
48546283 TTATAGTATTATATAATATGA-
1 TT-T--TATTAAATTATAT-AT
*
48546304 TTTTATTAAATTCATATAA
1 TTTTATTAAATT-ATATAT
*** * *
48546323 GAATATTTAATATTA-AGAA
1 TTTTA-TTAA-ATTATATAT
48546342 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
48546360 TTTTATTAAATTATAT
1 TTTTATTAAATTATAT
48546376 TTAATAATAA
Statistics
Matches: 103, Mismatches: 16, Indels: 34
0.67 0.10 0.22
Matches are distributed among these distances:
17 4 0.04
18 46 0.45
19 12 0.12
20 18 0.17
21 7 0.07
22 1 0.01
23 1 0.01
24 1 0.01
25 2 0.02
26 11 0.11
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.55
Consensus pattern (18 bp):
TTTTATTAAATTATATAT
Found at i:48546293 original size:241 final size:240
Alignment explanation
Indices: 48545784--48546395 Score: 1079
Period size: 241 Copynumber: 2.5 Consensus size: 240
48545774 TTCAAATTTT
*
48545784 ATTATTTTAAATTATA-TTTATAGTATTATATATTATGATTTTAGTAAATTC--TAAGAATCTTT
1 ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTAAGAATATTT
*
48545846 AATATTAAGAATTTTATTAAATTATATATTTTTACTAAATTATATTTTTAATAATAATTATTTTA
66 AATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATA--TTTAATAATAATTATTTTA
48545911 AATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATTAA
129 AATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATTAA
48545976 GAATTTTATTAAATTATATATTTTTATTAAATTATATTTTTAATAATA
194 GAATTTTATTAAATTATATATTTTTATTAAATTATA-TTTTAATAATA
* *
48546024 ATTATTTTAAATTATATTTTATAGTATTATGTATTATGATTTTAGTAAATTCATTTAATAATATT
1 ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCA-TTAAGAATATT
48546089 TAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
65 TAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
48546154 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAAATATTAA
130 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTT-AATATTAA
48546219 GAATTTTATTAAATTATATATTTTTATTAAATTATA-TTTAATAATA
194 GAATTTTATTAAATTATATATTTTTATTAAATTATATTTTAATAATA
* *
48546265 ATTATTTTAAATTATATTTTATAGTATTATATAATATGATTTTATTAAATTCATATAAGAATATT
1 ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCAT-TAAGAATATT
*
48546330 TAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAA
65 TAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
48546395 A
130 A
48546396 ATATGATTAA
Statistics
Matches: 357, Mismatches: 9, Indels: 11
0.95 0.02 0.03
Matches are distributed among these distances:
240 17 0.05
241 168 0.47
242 76 0.21
243 44 0.12
244 52 0.15
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (240 bp):
ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTAAGAATATTT
AATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAA
TTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATTAAGA
ATTTTATTAAATTATATATTTTTATTAAATTATATTTTAATAATA
Found at i:48546454 original size:120 final size:120
Alignment explanation
Indices: 48545784--48546395 Score: 1079
Period size: 122 Copynumber: 5.1 Consensus size: 120
48545774 TTCAAATTTT
*
48545784 ATTATTTTAAATTATA-TTTATAGTATTATATATTATGATTTTAGTAAATTC---TAAGAATCTT
1 ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATT
*
48545845 TAATATTAAGAATTTTATTAAATTATATATTTTTACTAAATTATATTTTTAATAATA
66 TAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATA--TTTAATAATA
48545902 ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATT
1 ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATT
48545967 TAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTTTAATAATA
66 TAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATA--TTTAATAATA
* *
48546024 ATTATTTTAAATTATATTTTATAGTATTATGTATTATGATTTTAGTAAATTCATTTAATAATATT
1 ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATT
48546089 TAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATA
66 TAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATA
48546144 ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATT
1 ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATT
48546209 TAAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATA
66 T-AATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATA
* * *
48546265 ATTATTTTAAATTATATTTTATAGTATTATATAATATGATTTTATTAAATTCATATAAGAATATT
1 ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATT
48546330 TAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATA
66 TAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATA
*
48546385 ATTATGTTAAA
1 ATTATTTTAAA
48546396 ATATGATTAA
Statistics
Matches: 479, Mismatches: 10, Indels: 8
0.96 0.02 0.02
Matches are distributed among these distances:
118 16 0.03
119 35 0.07
120 138 0.29
121 117 0.24
122 173 0.36
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (120 bp):
ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATT
TAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATA
Found at i:48546630 original size:46 final size:44
Alignment explanation
Indices: 48546545--48546634 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 44
48546535 CACCTCTATC
* * *
48546545 CCATTCAACTAAACACAAGAATACCATTACGCCTTTATTCCATT
1 CCATTCAACCAAACAAAAGAATACCATTACGCCTCTATTCCATT
*
48546589 CCATTCAACCAAACAAAAGAGTTACCTATTACGCCTCTATTCCATT
1 CCATTCAACCAAACAAAAGA-ATACC-ATTACGCCTCTATTCCATT
48546635 ACGCATCTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 18 0.45
45 4 0.10
46 18 0.45
ACGTcount: A:0.36, C:0.30, G:0.06, T:0.29
Consensus pattern (44 bp):
CCATTCAACCAAACAAAAGAATACCATTACGCCTCTATTCCATT
Found at i:48546637 original size:16 final size:16
Alignment explanation
Indices: 48546616--48546668 Score: 79
Period size: 16 Copynumber: 3.3 Consensus size: 16
48546606 AGAGTTACCT
48546616 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
* * *
48546632 ATTACGCATCTAATCA
1 ATTACGCCTCTATTCC
48546648 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
48546664 ATTAC
1 ATTAC
48546669 AGCGAACCAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.26, C:0.32, G:0.06, T:0.36
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:48547494 original size:14 final size:13
Alignment explanation
Indices: 48547426--48547485 Score: 61
Period size: 13 Copynumber: 4.6 Consensus size: 13
48547416 TTTTACCCCG
*
48547426 AACCCAAAACTCTA
1 AACCCTAAACTC-A
*
48547440 AACCCT-AACGCAA
1 AACCCTAAACTC-A
48547453 AACCC-AAACTCA
1 AACCCTAAACTCA
*
48547465 AACCTTAAACTCA
1 AACCCTAAACTCA
48547478 AACCCTAA
1 AACCCTAA
48547486 GTCTCAAACT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
12 5 0.13
13 28 0.74
14 5 0.13
ACGTcount: A:0.48, C:0.37, G:0.02, T:0.13
Consensus pattern (13 bp):
AACCCTAAACTCA
Found at i:48549059 original size:14 final size:14
Alignment explanation
Indices: 48549040--48549074 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
48549030 ATAATAAATA
*
48549040 TATTTTTTTATTTT
1 TATTTTTTAATTTT
48549054 TATTTTTTAATTTT
1 TATTTTTTAATTTT
*
48549068 TAATTTT
1 TATTTTT
48549075 AAAATACTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (14 bp):
TATTTTTTAATTTT
Found at i:48549101 original size:6 final size:6
Alignment explanation
Indices: 48549090--48549123 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
48549080 ACTTTAAAAA
48549090 TATTTT TATTTT TATTTTT TATTTTT TATTTT TA
1 TATTTT TATTTT TA-TTTT TA-TTTT TATTTT TA
48549124 AAATATTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 14 0.52
7 13 0.48
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
TATTTT
Found at i:48549108 original size:7 final size:7
Alignment explanation
Indices: 48549092--48549122 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
48549082 TTTAAAAATA
48549092 TTTTTA-
1 TTTTTAT
48549098 TTTTTAT
1 TTTTTAT
48549105 TTTTTAT
1 TTTTTAT
48549112 TTTTTAT
1 TTTTTAT
48549119 TTTT
1 TTTT
48549123 AAAATATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTTAT
Found at i:48550111 original size:18 final size:17
Alignment explanation
Indices: 48550054--48550144 Score: 112
Period size: 17 Copynumber: 5.3 Consensus size: 17
48550044 GTGAGAATTT
*
48550054 TTTTTGAAACACGAAAA
1 TTTTTAAAACACGAAAA
* * * *
48550071 CTTTTGAAATACGAGAA
1 TTTTTAAAACACGAAAA
48550088 -TTTTAAGAACACGAAAA
1 TTTTTAA-AACACGAAAA
48550105 TTTTTAAAACACGAAAA
1 TTTTTAAAACACGAAAA
48550122 TTTTTGAAAACACGAAAA
1 TTTTT-AAAACACGAAAA
48550140 TTTTT
1 TTTTT
48550145 GTAACAAGAG
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
16 5 0.08
17 37 0.57
18 23 0.35
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Found at i:48550145 original size:18 final size:18
Alignment explanation
Indices: 48550054--48550433 Score: 185
Period size: 18 Copynumber: 21.0 Consensus size: 18
48550044 GTGAGAATTT
48550054 TTTTTG-AAACACGAAAA
1 TTTTTGAAAACACGAAAA
* * *
48550071 CTTTTG-AAATACGAGAA
1 TTTTTGAAAACACGAAAA
48550088 -TTTT-AAGAACACGAAAA
1 TTTTTGAA-AACACGAAAA
48550105 TTTTT-AAAACACGAAAA
1 TTTTTGAAAACACGAAAA
48550122 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* **
48550140 TTTTTGTAACAAGA-GAATT
1 TTTTTG-AA-AACACGAAAA
**
48550159 TTTTTGAAAACACGAGGATTTT
1 TTTTTGAAAACACGA--A--AA
*
48550181 TTTTTGAAAACACAAAAAA
1 TTTTTGAAAACAC-GAAAA
* *
48550200 TTTGTG-AAACACGAGAAT
1 TTTTTGAAAACACGA-AAA
** *
48550218 TTTTTGAAAACGTGAGAA
1 TTTTTGAAAACACGAAAA
48550236 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* * * *
48550254 ATTCTG-AAACATGAGAATT
1 TTTTTGAAAACACGA-AA-A
**
48550273 TTTTTTTAAACA--AAAA
1 TTTTTGAAAACACGAAAA
* *
48550289 TTTTTG-AAACACCAGAA
1 TTTTTGAAAACACGAAAA
**
48550306 TTTTTGAAAACACGAGGA
1 TTTTTGAAAACACGAAAA
**
48550324 TTTTTGAAAA-ACG-ATT
1 TTTTTGAAAACACGAAAA
* * *
48550340 TTTTTTAAAACAC-AGAT
1 TTTTTGAAAACACGAAAA
*
48550357 TTTTTGTTTTGAAACACGAAAA
1 TTTTTG----AAAACACGAAAA
* **
48550379 TTTTTGAAAACAGGAATT
1 TTTTTGAAAACACGAAAA
* * *
48550397 TTTTTTAAGACACGAGAAT
1 TTTTTGAAAACACGA-AAA
*
48550416 TTTTTGAAAATACGAAAA
1 TTTTTGAAAACACGAAAA
48550434 CATGAAATTT
Statistics
Matches: 278, Mismatches: 57, Indels: 55
0.71 0.15 0.14
Matches are distributed among these distances:
15 5 0.02
16 19 0.07
17 70 0.25
18 105 0.38
19 39 0.14
20 9 0.03
21 7 0.03
22 23 0.08
23 1 0.00
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.34
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:48550594 original size:10 final size:10
Alignment explanation
Indices: 48550579--48550662 Score: 72
Period size: 10 Copynumber: 8.6 Consensus size: 10
48550569 CAAATTGAAT
48550579 TTTTCTTTTC
1 TTTTCTTTTC
48550589 TTTTCTTTT-
1 TTTTCTTTTC
48550598 TTTTC-TTT-
1 TTTTCTTTTC
48550606 TTTTCTTTTC
1 TTTTCTTTTC
48550616 TCTTT-TTTTC
1 T-TTTCTTTTC
48550626 TCTTT-TTTTC
1 T-TTTCTTTTC
*
48550636 TCTTTTTTTTC
1 T-TTTCTTTTC
*
48550647 TTCTCTCTTT-
1 TTTTCT-TTTC
48550657 TTTTCT
1 TTTTCT
48550663 GGCATGCTTC
Statistics
Matches: 66, Mismatches: 3, Indels: 10
0.84 0.04 0.13
Matches are distributed among these distances:
8 8 0.12
9 8 0.12
10 38 0.58
11 12 0.18
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTCTTTTC
Found at i:48550612 original size:22 final size:22
Alignment explanation
Indices: 48550584--48550648 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
48550574 TGAATTTTTC
48550584 TTTTCTTTTCTTTTTTTTCTTT
1 TTTTCTTTTCTTTTTTTTCTTT
*
48550606 TTTTCTTTTCTCTTTTTTTCTCT
1 TTTTCTTTTCT-TTTTTTTCTTT
*
48550629 TTTT-TTCTCTTTTTTTTCTT
1 TTTTCTTTTCTTTTTTTTCTT
48550649 CTCTCTTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
21 9 0.23
22 16 0.41
23 14 0.36
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (22 bp):
TTTTCTTTTCTTTTTTTTCTTT
Found at i:48550621 original size:34 final size:36
Alignment explanation
Indices: 48550578--48550662 Score: 124
Period size: 36 Copynumber: 2.4 Consensus size: 36
48550568 GCAAATTGAA
48550578 TTTT-TCTTTTCTTT-TCTTTTTTT-TCTTTTTT-TC
1 TTTTCTCTTTT-TTTCTCTTTTTTTCTCTTTTTTTTC
48550611 TTTTCTCTTTTTTTCTCTTTTTTTCTCTTTTTTTTC
1 TTTTCTCTTTTTTTCTCTTTTTTTCTCTTTTTTTTC
*
48550647 TTCTCTCTTTTTTTCT
1 TTTTCTCTTTTTTTCT
48550663 GGCATGCTTC
Statistics
Matches: 47, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
33 7 0.15
34 15 0.32
35 8 0.17
36 17 0.36
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (36 bp):
TTTTCTCTTTTTTTCTCTTTTTTTCTCTTTTTTTTC
Found at i:48550802 original size:5 final size:6
Alignment explanation
Indices: 48550787--48550856 Score: 52
Period size: 6 Copynumber: 11.3 Consensus size: 6
48550777 AAAAAACAAT
** **
48550787 TTTTTC TTTTTC TTTTTTC TTTCCC CCTTTC TTTTTCC TTTTTC TTTTTC
1 TTTTTC TTTTTC -TTTTTC TTTTTC TTTTTC TTTTT-C TTTTTC TTTTTC
* *
48550837 TTCTTC -CTTTC TTTCTTC TT
1 TTTTTC TTTTTC TTT-TTC TT
48550857 CTTCCTTGTT
Statistics
Matches: 48, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
5 3 0.06
6 28 0.58
7 17 0.35
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (6 bp):
TTTTTC
Found at i:48550804 original size:13 final size:13
Alignment explanation
Indices: 48550786--48550838 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
48550776 TAAAAAACAA
48550786 TTTTTTCTTTTTC
1 TTTTTTCTTTTTC
*
48550799 TTTTTTC-TTTCC
1 TTTTTTCTTTTTC
***
48550811 CCCTTTCTTTTTC
1 TTTTTTCTTTTTC
*
48550824 CTTTTTCTTTTTC
1 TTTTTTCTTTTTC
48550837 TT
1 TT
48550839 CTTCCTTTCT
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
12 8 0.26
13 23 0.74
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTTTTCTTTTTC
Found at i:48550857 original size:18 final size:17
Alignment explanation
Indices: 48550812--48550863 Score: 67
Period size: 18 Copynumber: 3.2 Consensus size: 17
48550802 TTTCTTTCCC
48550812 CCTTTCTTTTTC--CTT
1 CCTTTCTTTTTCTTCTT
48550827 --TTTCTTTTTCTTCTT
1 CCTTTCTTTTTCTTCTT
48550842 CCTTTCTTTCTTCTTCTT
1 CCTTTCTTT-TTCTTCTT
48550860 CCTT
1 CCTT
48550864 GTTTGGCCCC
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
13 10 0.31
15 3 0.09
17 7 0.22
18 12 0.38
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (17 bp):
CCTTTCTTTTTCTTCTT
Found at i:48551362 original size:30 final size:29
Alignment explanation
Indices: 48551328--48551483 Score: 190
Period size: 30 Copynumber: 5.2 Consensus size: 29
48551318 AGCCAAAACC
48551328 TAATTTTAAGAAAGTTTAAGGGTTAAAATG
1 TAATTTT-AGAAAGTTTAAGGGTTAAAATG
*
48551358 TAATTTTAAGAAAGTTTAAGGGTCAAAATG
1 TAATTTT-AGAAAGTTTAAGGGTTAAAATG
* * *
48551388 TAA-TTTAGAAAAGTTTAGGGGTTGAAATA
1 TAATTTTAG-AAAGTTTAAGGGTTAAAATG
48551417 TAATTTTGAGAAAGTTT-AGGGATTAAAATG
1 TAATTTT-AGAAAGTTTAAGGG-TTAAAATG
* *
48551447 TAATTTTAGAAAAGTTTAGGGGTCAAAATG
1 TAATTTTAG-AAAGTTTAAGGGTTAAAATG
48551477 TAATTTT
1 TAATTTT
48551484 TTTAAACACG
Statistics
Matches: 110, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
28 2 0.02
29 27 0.25
30 76 0.69
31 5 0.05
ACGTcount: A:0.41, C:0.01, G:0.21, T:0.37
Consensus pattern (29 bp):
TAATTTTAGAAAGTTTAAGGGTTAAAATG
Found at i:48551421 original size:59 final size:60
Alignment explanation
Indices: 48551328--48551483 Score: 219
Period size: 59 Copynumber: 2.6 Consensus size: 60
48551318 AGCCAAAACC
*
48551328 TAATTTTA-AGAAAGTTTAAGGGTTAAAATGTAATTTTAAGAAAGTTTAAGGG-TCAAAATG
1 TAATTTTAGA-AAAGTTTAGGGGTTAAAATGTAATTTTAAGAAAGTTT-AGGGATCAAAATG
* * * *
48551388 TAA-TTTAGAAAAGTTTAGGGGTTGAAATATAATTTTGAGAAAGTTTAGGGATTAAAATG
1 TAATTTTAGAAAAGTTTAGGGGTTAAAATGTAATTTTAAGAAAGTTTAGGGATCAAAATG
*
48551447 TAATTTTAGAAAAGTTTAGGGGTCAAAATGTAATTTT
1 TAATTTTAGAAAAGTTTAGGGGTTAAAATGTAATTTT
48551484 TTTAAACACG
Statistics
Matches: 85, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
58 4 0.05
59 47 0.55
60 34 0.40
ACGTcount: A:0.41, C:0.01, G:0.21, T:0.37
Consensus pattern (60 bp):
TAATTTTAGAAAAGTTTAGGGGTTAAAATGTAATTTTAAGAAAGTTTAGGGATCAAAATG
Found at i:48551745 original size:78 final size:76
Alignment explanation
Indices: 48551652--48551857 Score: 288
Period size: 78 Copynumber: 2.6 Consensus size: 76
48551642 GCTCGGCGTG
* *
48551652 CGACCCGAGGCTCAACTCACCTCTCGCAACATGAGTTGATTCTTGAAAAAA-AGAAATTGAAAAG
1 CGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT-TTGAAAAAACAAAAATTG-AAA-
48551716 AATACCTCAGCATA
63 AATACCTCAGCATA
* *
48551730 TGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTGAAAAAACAAAAATTGAAAA
1 CGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTGAAAAAACAAAAATTGAAAA
* * *
48551795 ATATCTCAGCGTG
64 ATACCTCAGCATA
48551808 CGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGAAAAA
1 CGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-GAAAAA
48551858 CAGACCTCTC
Statistics
Matches: 115, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
76 4 0.03
77 6 0.05
78 84 0.73
79 12 0.10
80 9 0.08
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (76 bp):
CGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAACAAAAATTGAAAAAT
ACCTCAGCATA
Found at i:48551872 original size:35 final size:35
Alignment explanation
Indices: 48551826--48551894 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
48551816 GGCTCAACTC
48551826 ACCTCTCGCAATATGAGTTGATTTTAGAAAAACAG
1 ACCTCTCGCAATATGAGTTGATTTTAGAAAAACAG
48551861 ACCTCTCGCAATATGAGTTGATTTTAGAAAAACA
1 ACCTCTCGCAATATGAGTTGATTTTAGAAAAACA
48551895 TAAATTTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (35 bp):
ACCTCTCGCAATATGAGTTGATTTTAGAAAAACAG
Found at i:48551944 original size:110 final size:113
Alignment explanation
Indices: 48551748--48551967 Score: 349
Period size: 110 Copynumber: 2.0 Consensus size: 113
48551738 GGCTCAACTC
* *
48551748 ACCTCTAGCAATATGAGTTGATTTTTTGAAAAAACAAAAATTGAAAAATATCTCAGCGTGCGACC
1 ACCTCTAGCAATATGAGTTGATTTTTAGAAAAAACAAAAATTGAAAAATACCTCAGCGTGCGACC
48551813 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT-TAGAAAAACAG
66 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAT-GAAAAACAG
* * * *
48551861 ACCTCTCGCAATATGAGTTGA-TTTTAG-AAAAACATAAATT-TAAAATACCTCAGCGTGTGACC
1 ACCTCTAGCAATATGAGTTGATTTTTAGAAAAAACAAAAATTGAAAAATACCTCAGCGTGCGACC
48551923 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTATGAAAAA
66 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTATGAAAAA
48551968 GACAGAAATT
Statistics
Matches: 100, Mismatches: 6, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
110 62 0.62
111 13 0.13
112 5 0.05
113 20 0.20
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.27
Consensus pattern (113 bp):
ACCTCTAGCAATATGAGTTGATTTTTAGAAAAAACAAAAATTGAAAAATACCTCAGCGTGCGACC
CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTATGAAAAACAG
Found at i:48551993 original size:188 final size:190
Alignment explanation
Indices: 48551670--48552049 Score: 570
Period size: 188 Copynumber: 2.0 Consensus size: 190
48551660 GGCTCAACTC
48551670 ACCTCTCGCAACATGAGTTGATTCTTGAAAAAAAGAAATTGAAAAGAATACCTCAGCATATGACC
1 ACCTCTCGCAACATGAGTTGATTCTTGAAAAAAAGAAATT-AAAAGAATACCTCAGCATATGACC
* *
48551735 CGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTGAAAAAACAAAAATTGAAAAATATC
65 CGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTATGAAAAAACAAAAATTGAAAAATACC
*
48551800 TCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGAAAAACAG
130 TCAGCGTGCGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTAGAAAAACAG
* * * * * *
48551861 ACCTCTCGCAATATGAGTTGATT-TTAGAAAAACATAAATT-TAA-AATACCTCAGCGTGTGACC
1 ACCTCTCGCAACATGAGTTGATTCTT-GAAAAAAAGAAATTAAAAGAATACCTCAGCATATGACC
* *
48551923 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTATGAAAAAGACAGAAATTGAAAAATAC
65 CGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTATGAAAAA-ACAAAAATTGAAAAATAC
* * * *
48551987 CTCAGCGTGTGACCCGAGGCTCAACTCACTTCTAGCAATATGAGTTTATTTTTGAAAAACAG
129 CTCAGCGTGCGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTAGAAAAACAG
48552049 A
1 A
48552050 AACTTAAAAG
Statistics
Matches: 172, Mismatches: 15, Indels: 7
0.89 0.08 0.04
Matches are distributed among these distances:
187 10 0.06
188 124 0.72
189 2 0.01
190 2 0.01
191 34 0.20
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.26
Consensus pattern (190 bp):
ACCTCTCGCAACATGAGTTGATTCTTGAAAAAAAGAAATTAAAAGAATACCTCAGCATATGACCC
GAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTATGAAAAAACAAAAATTGAAAAATACCT
CAGCGTGCGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTAGAAAAACAG
Found at i:48552093 original size:79 final size:76
Alignment explanation
Indices: 48551861--48552407 Score: 690
Period size: 78 Copynumber: 7.1 Consensus size: 76
48551851 AGAAAAACAG
* * * * *
48551861 ACCTCTCGCAATATGAGTTGATTTTAGAAAAACATAAATT-TAAAATACCTCAGCGTGTGACCCG
1 ACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCGGCATGTGACCCG
48551925 AGGCTCAACTC
66 AGGCTCAACTC
* * *
48551936 ACCTCTCGCAATATGAGTTGATTTATGAAAAAGACAGAAATTGAAAAATACCTCAGCGTGTGACC
1 ACCTCTCGCAATATGAGTTGATTTTTG-AAAA-ACAGAAATTGAAAAATACCTCGGCATGTGACC
48552001 CGAGGCTCAACTC
64 CGAGGCTCAACTC
* * * *
48552014 ACTTCTAGCAATATGAGTTTATTTTTGAAAAACAGAAACTTAAAAGAAATACCTCGGCATGTGAC
1 ACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-TT-GAA-AAATACCTCGGCATGTGAC
*
48552079 CTGAGGCTCAACTC
63 CCGAGGCTCAACTC
* * * *
48552093 ACCTCTCACAATATGAGTTGATTTTT-CAAAACAGAAATTTAAAAGAAATACTTCGGCATGTGAC
1 ACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-TT-GAA-AAATACCTCGGCATGTGAC
48552157 CCGAGGCTCAACTC
63 CCGAGGCTCAACTC
* ** * *
48552171 ACCTCTCGCAATATGAGTTGATTTTTGAAAAGCAGAAATTGAAAAATACCTTAGC--GTAACTCG
1 ACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCGGCATGTGACCCG
*
48552234 AGACTCAACTC
66 AGGCTCAACTC
* *
48552245 ACCTCTCGCAATATGAGTTGATTTGTTGAAAAAATAGAAATTGAAAAATACCTCGGCGTGTG-CC
1 ACCTCTCGCAATATGAGTTGATTT-TTG-AAAAACAGAAATTGAAAAATACCTCGGCATGTGACC
48552309 CGAGGCTCAACTC
64 CGAGGCTCAACTC
48552322 ACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAACAGAAATTGAAGAGAATACCTCGGCATGTG
1 ACCTCTCGCAATATGAGTTGA--TTTTTG-AAAAACAGAAATTGAA-A-AATACCTCGGCATGTG
*
48552387 ACTCGAGGCTCAACTC
61 ACCCGAGGCTCAACTC
48552403 ACCTC
1 ACCTC
48552408 GGCATGTGAC
Statistics
Matches: 416, Mismatches: 40, Indels: 26
0.86 0.08 0.05
Matches are distributed among these distances:
74 40 0.10
75 28 0.07
76 44 0.11
77 50 0.12
78 155 0.37
79 65 0.16
80 15 0.04
81 19 0.05
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (76 bp):
ACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCGGCATGTGACCCG
AGGCTCAACTC
Found at i:48552127 original size:266 final size:266
Alignment explanation
Indices: 48551638--48552117 Score: 727
Period size: 266 Copynumber: 1.8 Consensus size: 266
48551628 AGAAATCAAG
* *
48551638 AATAGCTCGGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAACATGAGTTGATTCTTGAAAAAA
1 AATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAACATGAGTTGATTCTTGAAAAAA
48551703 AGAAATTGAAAAGAATACCTCAGCATATGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTG
66 AGAAATTGAAAAGAATACCTCAGCATATGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTG
* * *
48551768 ATTTTTTGAAAAAACAAAAATTGAAAAATATCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTC
131 ATTTTTTGAAAAAACAAAAATTAAAAAATACCTCAGCATGCGACCCGAGGCTCAACTCACCTCTC
*
48551833 GCAATATGAGTTGATTTTAGAAAAACAGACCTCTCGCAATATGAGTTGATTTTAGAAAAACATAA
196 ACAATATGAGTTGATTTTAGAAAAACAGACCTCTCGCAATATGAGTTGATTTTAGAAAAACATAA
48551898 ATTTAA
261 ATTTAA
* *
48551904 AATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT-TATGAAAAA
1 AATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAACATGAGTTGATTCT-TGAAAAA
* * *
48551968 GACAGAAATTG-AAA-AATACCTCAGCGTGTGACCCGAGGCTCAACTCACTTCTAGCAATATGAG
65 -A-AGAAATTGAAAAGAATACCTCAGCATATGACCCGAGGCTCAACTCACCTCTAGCAATATGAG
* * * * *
48552031 TTTA-TTTTTG-AAAAACAGAAACTTAAAAGAAATACCTCGGCATGTGACCTGAGGCTCAACTCA
128 TTGATTTTTTGAAAAAACA-AAAATT-AAA-AAATACCTCAGCATGCGACCCGAGGCTCAACTCA
48552094 CCTCTCACAATATGAGTTGATTTT
190 CCTCTCACAATATGAGTTGATTTT
48552118 TCAAAACAGA
Statistics
Matches: 192, Mismatches: 16, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
264 7 0.04
265 12 0.06
266 109 0.57
267 56 0.29
268 8 0.04
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.25
Consensus pattern (266 bp):
AATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAACATGAGTTGATTCTTGAAAAAA
AGAAATTGAAAAGAATACCTCAGCATATGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTG
ATTTTTTGAAAAAACAAAAATTAAAAAATACCTCAGCATGCGACCCGAGGCTCAACTCACCTCTC
ACAATATGAGTTGATTTTAGAAAAACAGACCTCTCGCAATATGAGTTGATTTTAGAAAAACATAA
ATTTAA
Found at i:48552155 original size:157 final size:153
Alignment explanation
Indices: 48551861--48552407 Score: 689
Period size: 157 Copynumber: 3.5 Consensus size: 153
48551851 AGAAAAACAG
* * * *
48551861 ACCTCTCGCAATATGAGTTGATTTTAGAAAAACATAAATT-TAAAATACCTCAGCGTGTGACC-C
1 ACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCAGCATGTGACCTC
*
48551924 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTATGAAAAAGACAGAAATTGAAAAATACCT
66 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAT-TAAAA-ACAGAAATTGAAAAATACCT
*
48551989 CAGCGTGTGACCCGAGGCTCAACTC
129 CGGCGTGTGACCCGAGGCTCAACTC
* * * * *
48552014 ACTTCTAGCAATATGAGTTTATTTTTGAAAAACAGAAACTTAAAAGAAATACCTCGGCATGTGAC
1 ACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-TT-GAA-AAATACCTCAGCATGTGAC
* * *
48552079 CT-GAGGCTCAACTCACCTCTCACAATATGAGTTGATTT-TTCAAAACAGAAATTTAAAAGAAAT
63 CTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTATTAAAAACAGAAA-TT-GAA-AAAT
* *
48552142 ACTTCGGCATGTGACCCGAGGCTCAACTC
125 ACCTCGGCGTGTGACCCGAGGCTCAACTC
* * *
48552171 ACCTCTCGCAATATGAGTTGATTTTTGAAAAGCAGAAATTGAAAAATACCTTAGC--GT-AACTC
1 ACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCAGCATGTGACCTC
* * *
48552233 GAGACTCAACTCACCTCTCGCAATATGAGTTGATTTGTTGAAAAAATAGAAATTGAAAAATACCT
66 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTATT--AAAAACAGAAATTGAAAAATACCT
48552298 CGGCGTGTG-CCCGAGGCTCAACTC
129 CGGCGTGTGACCCGAGGCTCAACTC
*
48552322 ACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAACAGAAATTGAAGAGAATACCTCGGCATGTG
1 ACCTCTCGCAATATGAGTTGA--TTTTTG-AAAAACAGAAATTGAA-A-AATACCTCAGCATGTG
48552387 A-CTCGAGGCTCAACTCACCTC
61 ACCTCGAGGCTCAACTCACCTC
48552408 GGCATGTGAC
Statistics
Matches: 340, Mismatches: 34, Indels: 35
0.83 0.08 0.09
Matches are distributed among these distances:
151 39 0.11
152 51 0.15
153 43 0.13
154 36 0.11
155 17 0.05
156 15 0.04
157 117 0.34
158 21 0.06
159 1 0.00
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (153 bp):
ACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCAGCATGTGACCTC
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTATTAAAAACAGAAATTGAAAAATACCTCG
GCGTGTGACCCGAGGCTCAACTC
Found at i:48552416 original size:29 final size:29
Alignment explanation
Indices: 48552374--48552436 Score: 126
Period size: 29 Copynumber: 2.2 Consensus size: 29
48552364 TGAAGAGAAT
48552374 ACCTCGGCATGTGACTCGAGGCTCAACTC
1 ACCTCGGCATGTGACTCGAGGCTCAACTC
48552403 ACCTCGGCATGTGACTCGAGGCTCAACTC
1 ACCTCGGCATGTGACTCGAGGCTCAACTC
48552432 ACCTC
1 ACCTC
48552437 TCGCAATATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.21, C:0.37, G:0.22, T:0.21
Consensus pattern (29 bp):
ACCTCGGCATGTGACTCGAGGCTCAACTC
Found at i:48553361 original size:30 final size:30
Alignment explanation
Indices: 48553327--48553390 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
48553317 TTCATCTTGA
48553327 TTTTTCATTTTTTTTTGTTTCTTTATATTT
1 TTTTTCATTTTTTTTTGTTTCTTTATATTT
** * *
48553357 TTTTTTGTTTTTTTTTGTTTTTTTCTATTT
1 TTTTTCATTTTTTTTTGTTTCTTTATATTT
48553387 TTTT
1 TTTT
48553391 AGGCATAACA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.06, C:0.05, G:0.05, T:0.84
Consensus pattern (30 bp):
TTTTTCATTTTTTTTTGTTTCTTTATATTT
Found at i:48553370 original size:11 final size:10
Alignment explanation
Indices: 48553334--48553390 Score: 69
Period size: 10 Copynumber: 5.7 Consensus size: 10
48553324 TGATTTTTCA
48553334 TTTTTTTTTG
1 TTTTTTTTTG
* * *
48553344 TTTCTTTATA
1 TTTTTTTTTG
48553354 TTTTTTTTTG
1 TTTTTTTTTG
48553364 TTTTTTTTTG
1 TTTTTTTTTG
* *
48553374 TTTTTTTCTA
1 TTTTTTTTTG
48553384 TTTTTTT
1 TTTTTTT
48553391 AGGCATAACA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 39 1.00
ACGTcount: A:0.05, C:0.04, G:0.05, T:0.86
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:48556969 original size:46 final size:45
Alignment explanation
Indices: 48556902--48557227 Score: 406
Period size: 46 Copynumber: 7.6 Consensus size: 45
48556892 TTTGAGTACT
* *
48556902 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-TTTAGCTACACTTA
48556948 TCTGATCAAGTGACAAAGTGAT-A-----AG--T-GCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTAGCTACACTTA
*
48556984 TCTGATCAAGAGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-TTTAGCTACACTTA
48557030 TCTGATCAAGTGACAAAGTGAT-A-----AG--TA-CTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTAGCTACACTTA
*
48557066 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-TTTAGCTACACTTA
48557112 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGT-TTAGCTACACTTA
*
48557158 TCTGATCAAGTGACAAAGTGA-AAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-TTTAGCTACACTTA
*
48557203 TTTGATCAAG-GAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
48557228 ATCATACGTA
Statistics
Matches: 250, Mismatches: 7, Indels: 48
0.82 0.02 0.16
Matches are distributed among these distances:
36 62 0.25
37 5 0.02
40 4 0.02
42 4 0.02
43 6 0.02
44 8 0.03
45 37 0.15
46 124 0.50
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTAGCTACACTTA
Found at i:48556979 original size:36 final size:36
Alignment explanation
Indices: 48556938--48557138 Score: 204
Period size: 36 Copynumber: 5.0 Consensus size: 36
48556928 GGTAGCTTTA
48556938 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
*
48556974 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGTTTT
1 GCTACACTTATCTGATCAAGTGACAAAGTGAT-A-----AG---T
48557019 AGCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
*
48557056 ACTACACTTATCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTT
1 GCTACACTTATCTGATCAAGTGACAAAGTGAT-A-----AG---T
48557101 AGCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
48557138 G
1 G
48557139 GTAGTCTTAG
Statistics
Matches: 141, Mismatches: 4, Indels: 40
0.76 0.02 0.22
Matches are distributed among these distances:
36 63 0.45
37 4 0.03
40 4 0.03
42 4 0.03
45 4 0.03
46 62 0.44
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
Found at i:48557039 original size:82 final size:82
Alignment explanation
Indices: 48556902--48557227 Score: 469
Period size: 82 Copynumber: 3.9 Consensus size: 82
48556892 TTTGAGTACT
*
48556902 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
48556967 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
*
48556984 TCTGATCAAGAGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
*
48557049 GATAAGTACTACACTTA
66 GATAAGTGCTACACTTA
* *
48557066 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
48557131 GATAAGTGGTAGTCTTAGCTACACTTA
66 GAT-A-----AG---T-GCTACACTTA
* * *
48557158 TCTGATCAAGTGACAAAGTGA-AAGTGGTAGCCTTAGCTACACTTATTTGATCAAG-GAC-AAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
48557220 GATAAGTG
66 GATAAGTG
48557228 ATCATACGTA
Statistics
Matches: 224, Mismatches: 10, Indels: 23
0.87 0.04 0.09
Matches are distributed among these distances:
79 1 0.00
80 1 0.00
82 144 0.64
83 3 0.01
88 3 0.01
89 7 0.03
90 3 0.01
91 32 0.14
92 30 0.13
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (82 bp):
TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
GATAAGTGCTACACTTA
Found at i:48557220 original size:128 final size:127
Alignment explanation
Indices: 48556902--48557227 Score: 406
Period size: 128 Copynumber: 2.6 Consensus size: 127
48556892 TTTGAGTACT
* * *
48556902 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
48556967 GATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTA
65 GATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGTCTTAGCTACACTTA
48557030 TCTGATCAAGTGACAAAGTGAT-A-----AG---TA-CTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
48557085 GATAAGTGTTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGTCTTAGC
65 GAT-A-----AG---T-GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGTCTTAGC
48557150 TACACTTA
120 TACACTTA
*
48557158 TCTGATCAAGTGACAAAGTGA-AAGTGGTAGCCTTAGCTACACTTATTTGATCAAG-GACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAGTG
48557221 ATAAGTG
66 ATAAGTG
48557228 ATCATACGTA
Statistics
Matches: 173, Mismatches: 5, Indels: 43
0.78 0.02 0.19
Matches are distributed among these distances:
118 31 0.18
119 3 0.02
122 2 0.01
124 2 0.01
125 1 0.01
126 1 0.01
127 2 0.01
128 96 0.55
129 2 0.01
133 2 0.01
134 1 0.01
135 7 0.04
136 5 0.03
137 18 0.10
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (127 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAGTG
ATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGTCTTAGCTACACTTA
Found at i:48562342 original size:20 final size:20
Alignment explanation
Indices: 48562304--48562342 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
48562294 CTCAATCCAA
* * *
48562304 TTGAAACATGAGAATTTTTT
1 TTGAAACACGAAAACTTTTT
48562324 TTGAAACACGAAAACTTTT
1 TTGAAACACGAAAACTTTT
48562343 GAAATACAAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.38
Consensus pattern (20 bp):
TTGAAACACGAAAACTTTTT
Found at i:48564765 original size:47 final size:47
Alignment explanation
Indices: 48564710--48565020 Score: 487
Period size: 47 Copynumber: 6.6 Consensus size: 47
48564700 TATTTGAATA
*
48564710 AATGTGAAAGTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
48564757 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
48564806 AATGTGAAAGTGTATATATGTAATAAGGCCTAATCGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
48564853 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
48564900 AAGGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * *
48564947 AATGTGAAAGTGTATATATGTGACAGGGTCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
48564994 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
48565021 TCCCGAAGGG
Statistics
Matches: 244, Mismatches: 18, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
47 198 0.81
49 46 0.19
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:48564898 original size:22 final size:22
Alignment explanation
Indices: 48564870--48564945 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
48564860 AAGTGTATAT
48564870 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
*** ****
48564892 ATGTGATGAAGGTGAAAGTGTATAT
1 ATGTGAT-AAGGCCTAA-TG-GCCG
48564917 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
48564939 ATGTGAT
1 ATGTGAT
48564946 GAATGTGAAA
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 14 0.38
23 8 0.22
24 8 0.22
25 7 0.19
ACGTcount: A:0.30, C:0.11, G:0.32, T:0.28
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCG
Found at i:48565195 original size:37 final size:37
Alignment explanation
Indices: 48565139--48565217 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
48565129 CCGAGCTCTA
* * * *
48565139 AAGACTCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
48565176 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
48565213 AAGAC
1 AAGAC
48565218 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:48566027 original size:17 final size:18
Alignment explanation
Indices: 48565982--48566206 Score: 161
Period size: 18 Copynumber: 12.2 Consensus size: 18
48565972 GTTACAAGAA
*
48565982 TTTTAAAAACACGAAAAT
1 TTTTGAAAACACGAAAAT
48566000 TTTTGAAAACACGAAAAT
1 TTTTGAAAACACGAAAAT
* *
48566018 TTTTGTAACAAGA-GAAATT
1 TTTTG-AA-AACACGAAAAT
* **
48566037 TTTTGAAAACATGAGGATTTTT
1 TTTTGAAAACACGA--A--AAT
*
48566059 TTTTGAAAACACAAAAAT
1 TTTTGAAAACACGAAAAT
* *
48566077 TTGTG-AAACACGAGAATT
1 TTTTGAAAACACGA-AAAT
** *
48566095 TTTTGAAAATGCGAGAAT
1 TTTTGAAAACACGAAAAT
48566113 TTTTGAAAACACGAAAAT
1 TTTTGAAAACACGAAAAT
** * *
48566131 TTACG-AAGCACGAGAATT
1 TTTTGAAAACACGA-AAAT
*
48566149 TTTTGAATACACGAAAAT
1 TTTTGAAAACACGAAAAT
**
48566167 TTACGAAAACACGAAAAT
1 TTTTGAAAACACGAAAAT
*
48566185 TTTTG-AAACAAGAGAAAT
1 TTTTGAAAACACGA-AAAT
48566203 TTTT
1 TTTT
48566207 TTTTTAAATT
Statistics
Matches: 160, Mismatches: 35, Indels: 24
0.73 0.16 0.11
Matches are distributed among these distances:
17 24 0.15
18 93 0.58
19 24 0.15
20 5 0.03
22 14 0.09
ACGTcount: A:0.45, C:0.10, G:0.14, T:0.31
Consensus pattern (18 bp):
TTTTGAAAACACGAAAAT
Found at i:48566078 original size:22 final size:22
Alignment explanation
Indices: 48566035--48566078 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
48566025 ACAAGAGAAA
** **
48566035 TTTTTTGAAAACATGAGGATTT
1 TTTTTTGAAAACACAAAAATTT
48566057 TTTTTTGAAAACACAAAAATTT
1 TTTTTTGAAAACACAAAAATTT
48566079 GTGAAACACG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.43
Consensus pattern (22 bp):
TTTTTTGAAAACACAAAAATTT
Found at i:48566123 original size:37 final size:35
Alignment explanation
Indices: 48565996--48566132 Score: 98
Period size: 37 Copynumber: 3.7 Consensus size: 35
48565986 AAAAACACGA
* *
48565996 AAATTTTTGAAAACACGA-AAATTTTTGTAACAAGAG
1 AAATTTTTGAAAACACGAGAATTTTTTG-AA-AAGCG
* * * *
48566032 AAATTTTTTGAAAACATGAGGATTTTTTTTTGAAAACACAA
1 AAA-TTTTTGAAAACACGA-GA--ATTTTTTGAAAA-GC-G
*
48566073 AAATTTGTG-AAACACGAGAATTTTTTGAAAATGCG
1 AAATTTTTGAAAACACGAGAATTTTTTGAAAA-GCG
*
48566108 AGAATTTTTGAAAACACGAAAATTT
1 A-AATTTTTGAAAACACGAGAATTT
48566133 ACGAAGCACG
Statistics
Matches: 78, Mismatches: 14, Indels: 17
0.72 0.13 0.16
Matches are distributed among these distances:
35 1 0.01
36 22 0.28
37 27 0.35
38 2 0.03
39 10 0.13
40 7 0.09
41 9 0.12
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.34
Consensus pattern (35 bp):
AAATTTTTGAAAACACGAGAATTTTTTGAAAAGCG
Found at i:48566131 original size:54 final size:55
Alignment explanation
Indices: 48565997--48566207 Score: 212
Period size: 54 Copynumber: 3.8 Consensus size: 55
48565987 AAAACACGAA
* *
48565997 AATTTTTGAAAACACGAAAATTTTTGTAACAAGAGAAATTTTTTGAAAACATGAG-G
1 AATTTTTGAAAACACGAAAATTTTTGAAACAAGAGAAATTTTTTG-AAA-ATGCGAG
* * * *
48566053 ATTTTTTTTTGAAAACACAAAAATTTGTGAAACACGAG-AATTTTTTGAAAATGCGAG
1 A---ATTTTTGAAAACACGAAAATTTTTGAAACAAGAGAAATTTTTTGAAAATGCGAG
** * * * ** *
48566110 AATTTTTGAAAACACGAAAATTTACGAAGCACGAG-AATTTTTTGAATACACGAA
1 AATTTTTGAAAACACGAAAATTTTTGAAACAAGAGAAATTTTTTGAAAATGCGAG
**
48566164 AATTTACGAAAACACGAAAATTTTTGAAACAAGAGAAATTTTTT
1 AATTTTTGAAAACACGAAAATTTTTGAAACAAGAGAAATTTTTT
48566208 TTTTAAATTT
Statistics
Matches: 129, Mismatches: 21, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
54 73 0.57
55 8 0.06
56 5 0.04
57 5 0.04
58 9 0.07
59 29 0.22
ACGTcount: A:0.44, C:0.09, G:0.15, T:0.32
Consensus pattern (55 bp):
AATTTTTGAAAACACGAAAATTTTTGAAACAAGAGAAATTTTTTGAAAATGCGAG
Found at i:48566269 original size:17 final size:18
Alignment explanation
Indices: 48566249--48566326 Score: 70
Period size: 17 Copynumber: 4.2 Consensus size: 18
48566239 AACATGAGGA
48566249 TTTTTGAAACAC-AATTT
1 TTTTTGAAACACGAATTT
* *
48566266 TTTTTAAAACACTAACTTTT
1 TTTTTGAAACACGAA--TTT
**
48566286 TGTTTTGAAACACGAA-AA
1 T-TTTTGAAACACGAATTT
48566304 TTTTTGAAAACACGAATTT
1 TTTTTG-AAACACGAATTT
48566323 TTTT
1 TTTT
48566327 AAGACATGAG
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
17 16 0.33
18 12 0.25
19 4 0.08
20 4 0.08
21 12 0.25
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.45
Consensus pattern (18 bp):
TTTTTGAAACACGAATTT
Found at i:48566295 original size:38 final size:39
Alignment explanation
Indices: 48566250--48566325 Score: 100
Period size: 39 Copynumber: 2.0 Consensus size: 39
48566240 ACATGAGGAT
** * *
48566250 TTTTGAAACAC-AATTTTTTTTAAAACACTAACTTTTTG
1 TTTTGAAACACGAAAATTTTTGAAAACACGAACTTTTTG
*
48566288 TTTTGAAACACGAAAATTTTTGAAAACACGAATTTTTT
1 TTTTGAAACACGAAAATTTTTGAAAACACGAACTTTTT
48566326 TAAGACATGA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
38 11 0.34
39 21 0.66
ACGTcount: A:0.37, C:0.12, G:0.08, T:0.43
Consensus pattern (39 bp):
TTTTGAAACACGAAAATTTTTGAAAACACGAACTTTTTG
Found at i:48566307 original size:21 final size:19
Alignment explanation
Indices: 48566249--48566308 Score: 52
Period size: 21 Copynumber: 3.1 Consensus size: 19
48566239 AACATGAGGA
48566249 TTTTTGAAACAC--AATTT
1 TTTTTGAAACACAAAATTT
* **
48566266 TTTTTAAAACACTAACTTTT
1 TTTTTGAAACAC-AAAATTT
48566286 TGTTTTGAAACACGAAAATTT
1 T-TTTTGAAACAC-AAAATTT
48566307 TT
1 TT
48566309 GAAAACACGA
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
17 11 0.34
20 5 0.16
21 16 0.50
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.47
Consensus pattern (19 bp):
TTTTTGAAACACAAAATTT
Found at i:48566316 original size:18 final size:18
Alignment explanation
Indices: 48566288--48566357 Score: 63
Period size: 17 Copynumber: 3.9 Consensus size: 18
48566278 TAACTTTTTG
48566288 TTTTG-AAACACGAAAAT
1 TTTTGAAAACACGAAAAT
*
48566305 TTTTGAAAACACG-AATT
1 TTTTGAAAACACGAAAAT
* * * *
48566322 TTTTTAAGACATGAGAAT
1 TTTTGAAAACACGAAAAT
*
48566340 TTGTTGAAAATACGAAAA
1 TT-TTGAAAACACGAAAA
48566358 CATGAAATTT
Statistics
Matches: 39, Mismatches: 11, Indels: 4
0.72 0.20 0.07
Matches are distributed among these distances:
17 18 0.46
18 11 0.28
19 10 0.26
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.33
Consensus pattern (18 bp):
TTTTGAAAACACGAAAAT
Found at i:48566756 original size:15 final size:15
Alignment explanation
Indices: 48566727--48566783 Score: 55
Period size: 17 Copynumber: 3.7 Consensus size: 15
48566717 AAATTGAGTT
48566727 AAAT-TAAAA-ATAA
1 AAATATAAAATATAA
48566740 AAATATAAAATATAA
1 AAATATAAAATATAA
48566755 AAATGCATAAAATACTAA
1 AAAT--ATAAAATA-TAA
*
48566773 TAATATTAAAA
1 AAATA-TAAAA
48566784 CGAAATAGCA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
13 4 0.11
14 5 0.14
15 8 0.22
16 1 0.03
17 13 0.35
18 6 0.16
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (15 bp):
AAATATAAAATATAA
Found at i:48566907 original size:11 final size:10
Alignment explanation
Indices: 48566888--48566940 Score: 54
Period size: 10 Copynumber: 5.3 Consensus size: 10
48566878 CAAATTGAAC
48566888 TTTTCTTTTCT
1 TTTTCTTTT-T
*
48566899 TTTTATTTTT
1 TTTTCTTTTT
*
48566909 TTTTGTTTTT
1 TTTTCTTTTT
*
48566919 TTCTC-TTTT
1 TTTTCTTTTT
*
48566928 TTCTCTTTTT
1 TTTTCTTTTT
48566938 TTT
1 TTT
48566941 CTTCTCTCTT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
9 9 0.25
10 19 0.53
11 8 0.22
ACGTcount: A:0.02, C:0.11, G:0.02, T:0.85
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:48566917 original size:9 final size:9
Alignment explanation
Indices: 48566887--48566943 Score: 55
Period size: 9 Copynumber: 6.3 Consensus size: 9
48566877 GCAAATTGAA
48566887 CTTTTCTTTT
1 CTTTT-TTTT
48566897 CTTTTTATTT
1 CTTTTT-TTT
*
48566907 -TTTTTTGT
1 CTTTTTTTT
*
48566915 -TTTTTTCT
1 CTTTTTTTT
*
48566923 CTTTTTTCT
1 CTTTTTTTT
48566932 CTTTTTTTT
1 CTTTTTTTT
48566941 CTT
1 CTT
48566944 CTCTCTTTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
8 9 0.21
9 25 0.60
10 8 0.19
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.82
Consensus pattern (9 bp):
CTTTTTTTT
Found at i:48566927 original size:8 final size:9
Alignment explanation
Indices: 48566915--48566957 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
48566905 TTTTTTTTGT
48566915 TTTTTTCTC
1 TTTTTTCTC
48566924 TTTTTTCTC
1 TTTTTTCTC
*
48566933 TTTTTTTTC
1 TTTTTTCTC
* *
48566942 TTCTCTCT-
1 TTTTTTCTC
48566950 TTTTTTCT
1 TTTTTTCT
48566958 GGCCTACTTC
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
8 6 0.21
9 22 0.79
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTTCTC
Found at i:48566943 original size:18 final size:18
Alignment explanation
Indices: 48566896--48566955 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 18
48566886 ACTTTTCTTT
*
48566896 TCTTTTTATTT-TTTTTTG
1 TCTTTTT-TTTCTTTTTTC
*
48566914 T-TTTTTTCTCTTTTTTC
1 TCTTTTTTTTCTTTTTTC
*
48566931 TCTTTTTTTTC--TTCTC
1 TCTTTTTTTTCTTTTTTC
48566947 TCTTTTTTT
1 TCTTTTTTT
48566956 CTGGCCTACT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
16 15 0.42
17 12 0.33
18 9 0.25
ACGTcount: A:0.02, C:0.15, G:0.02, T:0.82
Consensus pattern (18 bp):
TCTTTTTTTTCTTTTTTC
Found at i:48566947 original size:14 final size:15
Alignment explanation
Indices: 48566924--48566957 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
48566914 TTTTTTTCTC
48566924 TTTT-TTCTCT-TTT
1 TTTTCTTCTCTCTTT
48566937 TTTTCTTCTCTCTTT
1 TTTTCTTCTCTCTTT
48566952 TTTTCT
1 TTTTCT
48566958 GGCCTACTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.21
14 6 0.32
15 9 0.47
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTCTTCTCTCTTT
Found at i:48567112 original size:5 final size:6
Alignment explanation
Indices: 48567085--48567172 Score: 54
Period size: 6 Copynumber: 14.2 Consensus size: 6
48567075 TGTAAAAAAA
** * *
48567085 TTTTCTT TTTTCT TTGTT-T TTTTCT TTTTCTT TTTTCT TTCCCC CTTTCT
1 TTTTC-T TTTTCT TT-TTCT TTTTCT TTTTC-T TTTTCT TTTTCT TTTTCT
* * *
48567135 TTTTCCT TCTTCT TTTTCT TCTTC- CTTTCT TTCTTCT T
1 TTTT-CT TTTTCT TTTTCT TTTTCT TTTTCT TT-TTCT T
48567173 CTTCCTTGTT
Statistics
Matches: 61, Mismatches: 14, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
5 5 0.08
6 33 0.54
7 23 0.38
ACGTcount: A:0.00, C:0.25, G:0.01, T:0.74
Consensus pattern (6 bp):
TTTTCT
Found at i:48567150 original size:12 final size:12
Alignment explanation
Indices: 48567135--48567179 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
48567125 CCCCCTTTCT
48567135 TTTTCCTTCTTC
1 TTTTCCTTCTTC
*
48567147 TTTTTCTTCTTC
1 TTTTCCTTCTTC
* *
48567159 CTTTCTTTCTTC
1 TTTTCCTTCTTC
48567171 TTCTTCCTT
1 TT-TTCCTT
48567180 GTTCGGCCCC
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
12 21 0.81
13 5 0.19
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTTCCTTCTTC
Found at i:48567173 original size:18 final size:17
Alignment explanation
Indices: 48567085--48567179 Score: 69
Period size: 18 Copynumber: 5.8 Consensus size: 17
48567075 TGTAAAAAAA
* * *
48567085 TTTTCTTTTTTCTTTGT
1 TTTTCTTCTTCCTTTCT
48567102 TTTT-TTCTT--TTTCTT
1 TTTTCTTCTTCCTTTC-T
**
48567117 TTTTCTTTCCCCCTTTCT
1 TTTTC-TTCTTCCTTTCT
48567135 TTTTC--CTT-C-TTCT
1 TTTTCTTCTTCCTTTCT
48567148 TTTTCTTCTTCCTTTCT
1 TTTTCTTCTTCCTTTCT
48567165 TTCTTCTTCTTCCTT
1 TT-TTCTTCTTCCTT
48567180 GTTCGGCCCC
Statistics
Matches: 62, Mismatches: 6, Indels: 19
0.71 0.07 0.22
Matches are distributed among these distances:
13 9 0.15
14 4 0.06
15 9 0.15
16 5 0.08
17 13 0.21
18 18 0.29
19 4 0.06
ACGTcount: A:0.00, C:0.26, G:0.01, T:0.73
Consensus pattern (17 bp):
TTTTCTTCTTCCTTTCT
Found at i:48567442 original size:20 final size:22
Alignment explanation
Indices: 48567413--48567456 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
48567403 GAGGCTACTG
48567413 TTTTTGCTTG-ATTTCTTTTGC
1 TTTTTGCTTGTATTTCTTTTGC
* *
48567434 TTTTT-CTTGTTTTTTTTTTGC
1 TTTTTGCTTGTATTTCTTTTGC
48567455 TT
1 TT
48567457 GGTTTTTCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.02, C:0.11, G:0.11, T:0.75
Consensus pattern (22 bp):
TTTTTGCTTGTATTTCTTTTGC
Found at i:48567665 original size:30 final size:31
Alignment explanation
Indices: 48567629--48567833 Score: 203
Period size: 30 Copynumber: 6.9 Consensus size: 31
48567619 AAATACAGTA
*
48567629 AAAGTTTT-GGGGCCAAAATGTAATTTTAAG
1 AAAGTTTTAGGGGTCAAAATGTAATTTTAAG
* *
48567659 AAAG-TTTAGGGGTCAAAATGTAATTTCAAA
1 AAAGTTTTAGGGGTCAAAATGTAATTTTAAG
* *
48567689 AAAG-TTTAGTGGTCAAAATGTAATTTCAAG
1 AAAGTTTTAGGGGTCAAAATGTAATTTTAAG
* *
48567719 AAA-TTTTAGGGATTAAAATGTAA-TTT-AG
1 AAAGTTTTAGGGGTCAAAATGTAATTTTAAG
* ** * *
48567747 AAAATTTTAGGGGTTGAAATGTAATTCTGAG
1 AAAGTTTTAGGGGTCAAAATGTAATTTTAAG
*
48567778 AAA-TTTTAGGGGTCGAAATGTAATTTTAA-
1 AAAGTTTTAGGGGTCAAAATGTAATTTTAAG
* * *
48567807 AAAG-TTTAAGGGTTAAAATATAATTTT
1 AAAGTTTTAGGGGTCAAAATGTAATTTT
48567834 TTTAAACAAG
Statistics
Matches: 150, Mismatches: 19, Indels: 13
0.82 0.10 0.07
Matches are distributed among these distances:
28 5 0.03
29 45 0.30
30 95 0.63
31 5 0.03
ACGTcount: A:0.40, C:0.04, G:0.20, T:0.36
Consensus pattern (31 bp):
AAAGTTTTAGGGGTCAAAATGTAATTTTAAG
Found at i:48567706 original size:60 final size:59
Alignment explanation
Indices: 48567628--48567833 Score: 241
Period size: 59 Copynumber: 3.5 Consensus size: 59
48567618 TAAATACAGT
* * *
48567628 AAAAGTTTTGGGGCCAAAATGTAATTTTAAGAAAGTTTAGGGGTCAAAATGTAATTTCAA
1 AAAAGTTTAGGGGTCAAAATGTAATTTTAAGAAATTTTAGGGGTCAAAATGTAATTT-AA
* * * * *
48567688 AAAAGTTTAGTGGTCAAAATGTAATTTCAAGAAATTTTAGGGATTAAAATGTAATTTAG
1 AAAAGTTTAGGGGTCAAAATGTAATTTTAAGAAATTTTAGGGGTCAAAATGTAATTTAA
* ** * * * *
48567747 AAAATTTTAGGGGTTGAAATGTAATTCTGAGAAATTTTAGGGGTCGAAATGTAATTTTA
1 AAAAGTTTAGGGGTCAAAATGTAATTTTAAGAAATTTTAGGGGTCAAAATGTAATTTAA
* * *
48567806 AAAAGTTTAAGGGTTAAAATATAATTTT
1 AAAAGTTTAGGGGTCAAAATGTAATTTT
48567834 TTTAAACAAG
Statistics
Matches: 121, Mismatches: 25, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
59 71 0.59
60 50 0.41
ACGTcount: A:0.40, C:0.04, G:0.20, T:0.35
Consensus pattern (59 bp):
AAAAGTTTAGGGGTCAAAATGTAATTTTAAGAAATTTTAGGGGTCAAAATGTAATTTAA
Found at i:48585932 original size:42 final size:41
Alignment explanation
Indices: 48585861--48585998 Score: 118
Period size: 43 Copynumber: 3.3 Consensus size: 41
48585851 GAATCACTAT
* * *
48585861 TTAGCAACCACC-TTATATTCAGTGATACGGGGATTCAGCAC
1 TTAGCAACC-CCTTTACAATCAATGATACGGGGATTCAGCAC
* * * *
48585902 ATAGCAACCCCTTTCACAATCAATGATACGGTGGAATCAGTAT
1 TTAGCAACCCCTTT-ACAATCAATGATACGG-GGATTCAGCAC
* * **
48585945 TTAGCAACCACCTTTAGAATCAATAATTTGGGGAATT-AGCAC
1 TTAGCAACC-CCTTTACAATCAATGATACGGGG-ATTCAGCAC
48585987 TTAGCAACCCCT
1 TTAGCAACCCCT
48585999 AAGGGAATCT
Statistics
Matches: 77, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
40 2 0.03
41 13 0.17
42 27 0.35
43 30 0.39
44 5 0.06
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.27
Consensus pattern (41 bp):
TTAGCAACCCCTTTACAATCAATGATACGGGGATTCAGCAC
Found at i:48585953 original size:43 final size:43
Alignment explanation
Indices: 48585846--48585968 Score: 135
Period size: 43 Copynumber: 2.9 Consensus size: 43
48585836 AATCGTTACT
* * * *
48585846 CGGTGGAATCACTATTTAGCAACCACC-TTATATTCAGTGATA
1 CGGTGGAATCAGTATTTAGCAACCACCTTTACAATCAATGATA
* * **
48585888 CGG-GGATTCAGCACATAGCAACC-CCTTTCACAATCAATGATA
1 CGGTGGAATCAGTATTTAGCAACCACCTTT-ACAATCAATGATA
*
48585930 CGGTGGAATCAGTATTTAGCAACCACCTTTAGAATCAAT
1 CGGTGGAATCAGTATTTAGCAACCACCTTTACAATCAAT
48585969 AATTTGGGGA
Statistics
Matches: 64, Mismatches: 13, Indels: 7
0.76 0.15 0.08
Matches are distributed among these distances:
40 2 0.03
41 17 0.27
42 16 0.25
43 24 0.38
44 5 0.08
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.27
Consensus pattern (43 bp):
CGGTGGAATCAGTATTTAGCAACCACCTTTACAATCAATGATA
Found at i:48586004 original size:26 final size:26
Alignment explanation
Indices: 48585975--48586024 Score: 84
Period size: 26 Copynumber: 1.9 Consensus size: 26
48585965 CAATAATTTG
48585975 GGGAAT-TAGCACTTAGCAACCCCTAA
1 GGGAATCT-GCACTTAGCAACCCCTAA
48586001 GGGAATCTGCACTTAGCAACCCCT
1 GGGAATCTGCACTTAGCAACCCCT
48586025 TTTACATTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 22 0.96
27 1 0.04
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (26 bp):
GGGAATCTGCACTTAGCAACCCCTAA
Found at i:48592717 original size:31 final size:31
Alignment explanation
Indices: 48592679--48592744 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
48592669 AGTAAAAATG
48592679 GGCCTACAAGCCTATGATGTTCACCAGTGTA
1 GGCCTACAAGCCTATGATGTTCACCAGTGTA
* *
48592710 GGCCTACAAGTCTATGATGTTCACCAGTGTG
1 GGCCTACAAGCCTATGATGTTCACCAGTGTA
48592741 GGCC
1 GGCC
48592745 CACACACCCG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (31 bp):
GGCCTACAAGCCTATGATGTTCACCAGTGTA
Found at i:48593485 original size:28 final size:28
Alignment explanation
Indices: 48593453--48593555 Score: 145
Period size: 28 Copynumber: 3.7 Consensus size: 28
48593443 AGTACAATGA
* * *
48593453 GGGCCTTAACCCAATGCAGTAA-AAGTGT
1 GGGCCTTAGCCCAATACAG-AATCAGTGT
*
48593481 GGGCCTTAGCCCAATATAGAATCAGTGT
1 GGGCCTTAGCCCAATACAGAATCAGTGT
*
48593509 GGGCATTAGCCCAATACAGAATCAGTGT
1 GGGCCTTAGCCCAATACAGAATCAGTGT
48593537 GGGCCTTAGCCCAATACAG
1 GGGCCTTAGCCCAATACAG
48593556 TAACAATGCA
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 2 0.03
28 65 0.97
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.21
Consensus pattern (28 bp):
GGGCCTTAGCCCAATACAGAATCAGTGT
Found at i:48594060 original size:81 final size:81
Alignment explanation
Indices: 48593925--48594339 Score: 394
Period size: 81 Copynumber: 5.1 Consensus size: 81
48593915 AGGGGTTTAA
* * * * ** *
48593925 TAGTTATTTTACCCTATGG-GGATATTTTGGTCATTTTACCCTACGAAGGCATTTCGTTCATTCT
1 TAGTCATTTTACCCTATGGAGG-TATTTCGATCATTTTACCCTATGGGGGTATTTCGTTCATTCT
* *
48593989 ACCTTATAGGGGTATTT
65 ACCCTATGGGGGTATTT
* * * *
48594006 TTGTTATTTTACCTTATGGAGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGGTT-ATTCA
1 TAGTCATTTTACCCTATGGAGGTATTTCGATCATTTTACCCTATGGGGGTATTTC-GTTCATTCT
*
48594070 ACCCAATGGGGGTATTT
65 ACCCTATGGGGGTATTT
* * * * * ** * *
48594087 CAGTCATTCTATCCTATAG-GGTATTTATG-TCATTTTACCCTATAAGGGTATTTTGGTCATTCT
1 TAGTCATTTTACCCTATGGAGGTATTT-CGATCATTTTACCCTATGGGGGTATTTCGTTCATTCT
*
48594150 ACCCTATAGGGGTATTT
65 ACCCTATGGGGGTATTT
* * *
48594167 TAGTCATTCTACCCTAT-GAGGGTATTTC-AGTCATTCTACCCTATGGGGGTATTTCGGTCATTC
1 TAGTCATTTTACCCTATGGA-GGTATTTCGA-TCATTTTACCCTATGGGGGTATTTCGTTCATTC
*
48594230 TACTCTATGGGGGTATTT
64 TACCCTATGGGGGTATTT
* * * * * *
48594248 TGGTCATTTTACCCTACGAAGGTATTTCGATCATTCTACTCTATGGGGGTATTTCGATT-ATTTT
1 TAGTCATTTTACCCTATGGAGGTATTTCGATCATTTTACCCTATGGGGGTATTTCG-TTCATTCT
*
48594312 ACCCTACGGGGGTATTT
65 ACCCTATGGGGGTATTT
* *
48594329 CAGTTATTTTA
1 TAGTCATTTTA
48594340 TTAACCTCAC
Statistics
Matches: 275, Mismatches: 48, Indels: 22
0.80 0.14 0.06
Matches are distributed among these distances:
79 3 0.01
80 63 0.23
81 201 0.73
82 8 0.03
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.42
Consensus pattern (81 bp):
TAGTCATTTTACCCTATGGAGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGTTCATTCTA
CCCTATGGGGGTATTT
Found at i:48594339 original size:27 final size:27
Alignment explanation
Indices: 48593934--48594332 Score: 324
Period size: 27 Copynumber: 14.8 Consensus size: 27
48593924 ATAGTTATTT
* ** *
48593934 TACCCTATGGGGATATTTTGGTCATTT
1 TACCCTATGGGGGTATTTCAGTCATTC
* ** *
48593961 TACCCTACGAAGGCATTTC-GTTCATTC
1 TACCCTATGGGGGTATTTCAG-TCATTC
* * ** * *
48593988 TACCTTATAGGGGTATTTTTGTTATTT
1 TACCCTATGGGGGTATTTCAGTCATTC
* * *
48594015 TACCTTATGGAGGTATTTC-GATCATTT
1 TACCCTATGGGGGTATTTCAG-TCATTC
* *
48594042 TACCCTATGGGGGTATTTCGGTTATTC
1 TACCCTATGGGGGTATTTCAGTCATTC
* *
48594069 AACCCAATGGGGGTATTTCAGTCATTC
1 TACCCTATGGGGGTATTTCAGTCATTC
* * *
48594096 TATCCTAT-AGGGTATTT-ATGTCATTT
1 TACCCTATGGGGGTATTTCA-GTCATTC
** **
48594122 TACCCTATAAGGGTATTTTGGTCATTC
1 TACCCTATGGGGGTATTTCAGTCATTC
* *
48594149 TACCCTATAGGGGTATTTTAGTCATTC
1 TACCCTATGGGGGTATTTCAGTCATTC
*
48594176 TACCCTATGAGGGTATTTCAGTCATTC
1 TACCCTATGGGGGTATTTCAGTCATTC
*
48594203 TACCCTATGGGGGTATTTCGGTCATTC
1 TACCCTATGGGGGTATTTCAGTCATTC
* ** *
48594230 TACTCTATGGGGGTATTTTGGTCATTT
1 TACCCTATGGGGGTATTTCAGTCATTC
* **
48594257 TACCCTACGAAGGTATTTC-GATCATTC
1 TACCCTATGGGGGTATTTCAG-TCATTC
* * *
48594284 TACTCTATGGGGGTATTTC-GATTATTT
1 TACCCTATGGGGGTATTTCAG-TCATTC
*
48594311 TACCCTACGGGGGTATTTCAGT
1 TACCCTATGGGGGTATTTCAGT
48594333 TATTTTATTA
Statistics
Matches: 303, Mismatches: 60, Indels: 18
0.80 0.16 0.05
Matches are distributed among these distances:
25 1 0.00
26 24 0.08
27 275 0.91
28 3 0.01
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.41
Consensus pattern (27 bp):
TACCCTATGGGGGTATTTCAGTCATTC
Found at i:48599061 original size:43 final size:43
Alignment explanation
Indices: 48598999--48599085 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
48598989 TTCGAGGATC
48598999 AACCCTAATCCCCTCAGCAGAAACCACATGGCCCAAAAATGTT
1 AACCCTAATCCCCTCAGCAGAAACCACATGGCCCAAAAATGTT
* *
48599042 AACCCTAATCCCCTGAGCAGAAACCACATGGCCCAGAAATGTT
1 AACCCTAATCCCCTCAGCAGAAACCACATGGCCCAAAAATGTT
48599085 A
1 A
48599086 CTTTCCGTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.37, C:0.33, G:0.14, T:0.16
Consensus pattern (43 bp):
AACCCTAATCCCCTCAGCAGAAACCACATGGCCCAAAAATGTT
Found at i:48601723 original size:25 final size:25
Alignment explanation
Indices: 48601695--48601743 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
48601685 TACAGTTTAT
* *
48601695 CTATAATAGTCTCAGTATATACTAC
1 CTATAACAGTCTCAGGATATACTAC
* *
48601720 CTATAGCAGTTTCAGGATATACTA
1 CTATAACAGTCTCAGGATATACTA
48601744 TAAAAAATAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (25 bp):
CTATAACAGTCTCAGGATATACTAC
Found at i:48608660 original size:18 final size:18
Alignment explanation
Indices: 48608627--48608661 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
48608617 ACGATGTGCC
*
48608627 AAACTATTTTCTTGCTTG
1 AAACTATTTTCATGCTTG
*
48608645 AAACTATTTTGATGCTT
1 AAACTATTTTCATGCTT
48608662 CATGTTCTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.14, G:0.11, T:0.49
Consensus pattern (18 bp):
AAACTATTTTCATGCTTG
Found at i:48611326 original size:43 final size:43
Alignment explanation
Indices: 48611276--48611362 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 43
48611266 ATTCACGTTT
* *
48611276 AAGCATATAT-ATTATTACGCATATAATCACCTAACATTCAAGC
1 AAGCATATATCA-TAATACGCATATAATCACATAACATTCAAGC
* *
48611319 AAGCATATATCATAATACTCATATAATCATATAACATTCAAGC
1 AAGCATATATCATAATACGCATATAATCACATAACATTCAAGC
48611362 A
1 A
48611363 TATTTCACAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
43 38 0.97
44 1 0.03
ACGTcount: A:0.45, C:0.20, G:0.06, T:0.30
Consensus pattern (43 bp):
AAGCATATATCATAATACGCATATAATCACATAACATTCAAGC
Found at i:48611385 original size:39 final size:39
Alignment explanation
Indices: 48611318--48611394 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 39
48611308 AACATTCAAG
*
48611318 CAAGCATATATCATAATACTCATATAATCAT-ATAACATT
1 CAAGCATATATCACAATACTCATATAATC-TCATAACATT
* *
48611357 CAAGCATATTTCACAATA-TACATTTAATCTCATAACAT
1 CAAGCATATATCACAATACT-CATATAATCTCATAACAT
48611395 ATTTATAGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
38 2 0.06
39 31 0.94
ACGTcount: A:0.44, C:0.19, G:0.03, T:0.34
Consensus pattern (39 bp):
CAAGCATATATCACAATACTCATATAATCTCATAACATT
Found at i:48620319 original size:16 final size:17
Alignment explanation
Indices: 48620298--48620349 Score: 61
Period size: 18 Copynumber: 3.1 Consensus size: 17
48620288 ATTAAGTTTT
48620298 TATCA-TATAAAATTTA
1 TATCATTATAAAATTTA
*
48620314 TATCATTCTAAAATATTA
1 TATCATTATAAAAT-TTA
* *
48620332 TATTATTATAATATTTA
1 TATCATTATAAAATTTA
48620349 T
1 T
48620350 TATTAAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
16 5 0.17
17 11 0.37
18 14 0.47
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
TATCATTATAAAATTTA
Found at i:48620352 original size:15 final size:16
Alignment explanation
Indices: 48620325--48620354 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
48620315 ATCATTCTAA
48620325 AATATTATATTATTAT
1 AATATTATATTATTAT
48620341 AATATT-TATTATTA
1 AATATTATATTATTA
48620355 AAATTTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
AATATTATATTATTAT
Found at i:48622858 original size:39 final size:40
Alignment explanation
Indices: 48622755--48622891 Score: 206
Period size: 40 Copynumber: 3.5 Consensus size: 40
48622745 GCGTTTGGAT
*
48622755 AAAAAACGCCGCTAAAAATCGAGCATTAGCGGCACTTTTC
1 AAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTTC
* *
48622795 AAAAAACGCCGCTAAAGATCGAGCATTAGCGGTGCTTTTC
1 AAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTTC
* *
48622835 AAAAAACGCCGCTAAAAAT-GAGCATTAGCGGCGTTTTTA
1 AAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTTC
48622874 AAAAAAGCGCCGC-AAAAA
1 AAAAAA-CGCCGCTAAAAA
48622892 CCTAAGCCCA
Statistics
Matches: 89, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
39 28 0.31
40 61 0.69
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (40 bp):
AAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTTC
Found at i:48623433 original size:14 final size:14
Alignment explanation
Indices: 48623402--48623444 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
48623392 AAAGTTTATA
*
48623402 GATTATGGAATTAGG
1 GATTATGG-ATTAAG
48623417 GATTATGGATTAAG
1 GATTATGGATTAAG
* *
48623431 GATTCTGGTTTAAG
1 GATTATGGATTAAG
48623445 AGTTGTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
14 17 0.68
15 8 0.32
ACGTcount: A:0.30, C:0.02, G:0.30, T:0.37
Consensus pattern (14 bp):
GATTATGGATTAAG
Found at i:48623600 original size:7 final size:7
Alignment explanation
Indices: 48623588--48623639 Score: 63
Period size: 7 Copynumber: 7.6 Consensus size: 7
48623578 TAAATAATGT
48623588 TTAGGGG
1 TTAGGGG
48623595 TTAGGGG
1 TTAGGGG
48623602 TT-GGGG
1 TTAGGGG
48623608 TT-GGAGG
1 TTAGG-GG
**
48623615 TTAGTAG
1 TTAGGGG
48623622 TTAGGGG
1 TTAGGGG
48623629 TTAGGGG
1 TTAGGGG
48623636 TTAG
1 TTAG
48623640 ATGTTAGAGG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
6 8 0.21
7 30 0.77
8 1 0.03
ACGTcount: A:0.15, C:0.00, G:0.52, T:0.33
Consensus pattern (7 bp):
TTAGGGG
Found at i:48623645 original size:14 final size:14
Alignment explanation
Indices: 48623588--48623652 Score: 60
Period size: 14 Copynumber: 4.7 Consensus size: 14
48623578 TAAATAATGT
*
48623588 TTAGGGGTTAGGGG
1 TTAGGGGTTAGAGG
*
48623602 TT-GGGGTTGGAGG
1 TTAGGGGTTAGAGG
** *
48623615 TTAGTAGTTAGGGG
1 TTAGGGGTTAGAGG
*
48623629 TTAGGGGTTAGATG
1 TTAGGGGTTAGAGG
*
48623643 TTAGAGGTTA
1 TTAGGGGTTA
48623653 AGAGTTAGTA
Statistics
Matches: 39, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
13 11 0.28
14 28 0.72
ACGTcount: A:0.18, C:0.00, G:0.48, T:0.34
Consensus pattern (14 bp):
TTAGGGGTTAGAGG
Found at i:48623659 original size:21 final size:21
Alignment explanation
Indices: 48623614--48623677 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
48623604 GGGGTTGGAG
* *
48623614 GTTAGTA-GTTAGGGGTTAGGG
1 GTTAGTATGTTA-GGGTTAAGA
48623635 GTTAG-ATGTTAGAGGTTAAGA
1 GTTAGTATGTTAG-GGTTAAGA
* *
48623656 GTTAGTATTTTAGGGTTTAGA
1 GTTAGTATGTTAGGGTTAAGA
48623677 G
1 G
48623678 ATTTAGGGTC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 2 0.06
21 28 0.78
22 6 0.17
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (21 bp):
GTTAGTATGTTAGGGTTAAGA
Found at i:48623778 original size:7 final size:7
Alignment explanation
Indices: 48623766--48623793 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
48623756 ATTGTAAAAG
48623766 AGGGGTT
1 AGGGGTT
48623773 AGGGGTT
1 AGGGGTT
48623780 AGGGGTT
1 AGGGGTT
48623787 AGGGGTT
1 AGGGGTT
48623794 TAGAGTTTAT
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:0.14, C:0.00, G:0.57, T:0.29
Consensus pattern (7 bp):
AGGGGTT
Found at i:48624605 original size:12 final size:12
Alignment explanation
Indices: 48624572--48624604 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
48624562 TGTGGTTTGA
48624572 TTTTATTTTATT
1 TTTTATTTTATT
48624584 TTTTAGTTTTA-T
1 TTTTA-TTTTATT
48624596 TTTTATTTT
1 TTTTATTTT
48624605 TTTGAGGGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 4 0.20
12 11 0.55
13 5 0.25
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (12 bp):
TTTTATTTTATT
Found at i:48632784 original size:21 final size:20
Alignment explanation
Indices: 48632746--48632785 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
48632736 CCCAAACTCC
* *
48632746 CAAATTTTTTACTTTTCCCT
1 CAAAATTTTTACTCTTCCCT
48632766 CAAAATTTTTACTCCTTCCC
1 CAAAATTTTTACT-CTTCCC
48632786 ACTTTTCCCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (20 bp):
CAAAATTTTTACTCTTCCCT
Found at i:48633743 original size:5 final size:5
Alignment explanation
Indices: 48633733--48633763 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
48633723 CTCGAAAATT
*
48633733 TTCGA TTCGA TTCGA TTCGA TTCTA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA T
48633764 CGAATGCTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.45
Consensus pattern (5 bp):
TTCGA
Found at i:48638631 original size:37 final size:37
Alignment explanation
Indices: 48638587--48638657 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
48638577 TATCATTTTT
* *
48638587 ATTAAATTTTATTTAATAATAATTATATTAAAATATG
1 ATTAAATTATATTTAATAATAATCATATTAAAATATG
*
48638624 ATTAAATTATATTTAATAATAATCCTATTAAAAT
1 ATTAAATTATATTTAATAATAATCATATTAAAAT
48638658 TTAATAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.46
Consensus pattern (37 bp):
ATTAAATTATATTTAATAATAATCATATTAAAATATG
Found at i:48644885 original size:7 final size:7
Alignment explanation
Indices: 48644870--48644912 Score: 61
Period size: 7 Copynumber: 6.3 Consensus size: 7
48644860 CCTGTTACTG
48644870 TTAGGGT
1 TTAGGGT
*
48644877 TTTGGGT
1 TTAGGGT
*
48644884 TTTGGGT
1 TTAGGGT
48644891 TTAGGGT
1 TTAGGGT
48644898 TTAGGG-
1 TTAGGGT
48644904 TTAGGGT
1 TTAGGGT
48644911 TT
1 TT
48644913 GGGGATTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
6 6 0.18
7 27 0.82
ACGTcount: A:0.09, C:0.00, G:0.42, T:0.49
Consensus pattern (7 bp):
TTAGGGT
Found at i:48645172 original size:95 final size:96
Alignment explanation
Indices: 48645041--48645261 Score: 295
Period size: 96 Copynumber: 2.3 Consensus size: 96
48645031 TAGTTTTTTT
* * *
48645041 AAAAA-TAAATTAAATTAGGGTTTAGGATTACTTGAGTAAATTAATTA-AAATTTTTAAAAAATT
1 AAAAATTAAA-TAAATTAGGGTTTAGGGTTACTTGAGTAAATTAAATATAAATTTTAAAAAAATT
* *
48645104 AGATT-AGGCTTTGGTGTTAAGGGTTTTTAAGG
65 AGATTAAGG-TTTAGTGTTAAGGGTTTTTAAGA
* *
48645136 AAAAATTAAATAAATTAGAGTTTAGGGTTACTTGAGTCAATTAAATATAAATTTTAAAAAAATTA
1 AAAAATTAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAAATATAAATTTTAAAAAAATTA
* *
48645201 GATTAATGTTTAGTGTTTAGGGTTTTTAAGA
66 GATTAAGGTTTAGTGTTAAGGGTTTTTAAGA
* *
48645232 AAAAACTCAAATAAATTAGGGTTTTGGGTT
1 AAAAA-TTAAATAAATTAGGGTTTAGGGTT
48645262 TAGGGTTAAT
Statistics
Matches: 110, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
95 38 0.35
96 49 0.45
97 23 0.21
ACGTcount: A:0.41, C:0.03, G:0.18, T:0.38
Consensus pattern (96 bp):
AAAAATTAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAAATATAAATTTTAAAAAAATTA
GATTAAGGTTTAGTGTTAAGGGTTTTTAAGA
Found at i:48645466 original size:126 final size:126
Alignment explanation
Indices: 48645294--48645582 Score: 350
Period size: 126 Copynumber: 2.3 Consensus size: 126
48645284 TAATTTAAAA
* * * * *
48645294 AAGCTTTCACGTGGACGTTGTTTTGCTATAATAGC-TCTTGAAAAAATAATTTTGAGAAGACGTT
1 AAGCTTACACGTGGACGTT-TTTTGCTACAGTAGCTTCTCGAAAAAATAATTTCGAGAAGACGTT
* * * * *
48645358 TCTGAGCAAATAATGTTAAAAACGCTTTAAGCAGGATGCATTGTCAGTAAAAGTATTGAAAG
65 TCTGAGCAAATAATGTAAAAAACACCTTAAACAGGATGCATTGTCAGCAAAAGTATTGAAAG
* * *
48645420 AAG-TTCCCACGTGGACGTTCTTTTGTTACAGTAGCTTC-CGAAAAAATAATTTCGAGTAGACGT
1 AAGCTT-ACACGTGGACGTT-TTTTGCTACAGTAGCTTCTCGAAAAAATAATTTCGAGAAGACGT
* * * *
48645483 TTTTGAGCAAATAGTGTAAAAAATACCTTAAACAGGATGCTTTGTCAGCAAAAGTATTGAAAG
64 TTCTGAGCAAATAATGTAAAAAACACCTTAAACAGGATGCATTGTCAGCAAAAGTATTGAAAG
*
48645546 AAGCTTACACATGGACGCATTTTTTGCTACAGTAGCT
1 AAGCTTACACGTGGACG--TTTTTTGCTACAGTAGCT
48645583 CCTGTTTGGC
Statistics
Matches: 138, Mismatches: 20, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
125 2 0.01
126 115 0.83
127 19 0.14
128 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (126 bp):
AAGCTTACACGTGGACGTTTTTTGCTACAGTAGCTTCTCGAAAAAATAATTTCGAGAAGACGTTT
CTGAGCAAATAATGTAAAAAACACCTTAAACAGGATGCATTGTCAGCAAAAGTATTGAAAG
Found at i:48649522 original size:36 final size:36
Alignment explanation
Indices: 48649470--48649551 Score: 146
Period size: 36 Copynumber: 2.3 Consensus size: 36
48649460 GTAATATTGT
48649470 TGCTAGTATATTGTTGCGTATGTTGTTATACATGAC
1 TGCTAGTATATTGTTGCGTATGTTGTTATACATGAC
* *
48649506 TGCTGGTATATTGTTGCTTATGTTGTTATACATGAC
1 TGCTAGTATATTGTTGCGTATGTTGTTATACATGAC
48649542 TGCTAGTATA
1 TGCTAGTATA
48649552 CATGGCTAAC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.22, C:0.11, G:0.22, T:0.45
Consensus pattern (36 bp):
TGCTAGTATATTGTTGCGTATGTTGTTATACATGAC
Found at i:48652173 original size:31 final size:31
Alignment explanation
Indices: 48652107--48652182 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 31
48652097 GTTGGGATAG
* * * *
48652107 TAAACACAAAATAGACAATCCGCTATGATAG
1 TAAACACAGAATAGACAATCCGCTAGGACAA
* *
48652138 TAAACACAGAATAGACAATCTGTTAGGACAA
1 TAAACACAGAATAGACAATCCGCTAGGACAA
48652169 TAAACACAGAATAG
1 TAAACACAGAATAG
48652183 TTAGTTCATC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.50, C:0.17, G:0.14, T:0.18
Consensus pattern (31 bp):
TAAACACAGAATAGACAATCCGCTAGGACAA
Found at i:48655235 original size:108 final size:107
Alignment explanation
Indices: 48655097--48655940 Score: 597
Period size: 108 Copynumber: 7.9 Consensus size: 107
48655087 TTTCAAAATT
* *
48655097 TTTTTTTTACTTTTTTCGTTTACTGGTGCCTACCATTGACACCAAAAAAGTAAAAAAAAATTTAA
1 TTTTTTTTACTTTTTTCGTATACTGGTGCCTACCATTGACACCAAAAAAGT-AAAAAAAATTGAA
** *
48655162 AACAGGTGTTGCCGACCATTGGCAAGCCACCACCAAAAAATAA
65 AACAGGTGGAGCCGACCATTGGCAGGCCACCACCAAAAAATAA
* * * **
48655205 TTTTTTTTACTTTTTTCGTATACTGATGCCTGCCATTAACATGAAAAAAGTAAAAAGAAACAAAA
1 TTTTTTTTACTTTTTTCGTATACTGGTGCCTACCATTGACACCAAAAAAGT----A-AAA-AAAA
* ** **
48655270 TTTGGAAACAGGTGGAGCAAACCATTGGCAGGCCACCACC---AAATTT
60 -TTGAAAACAGGTGGAGCCGACCATTGGCAGGCCACCACCAAAAAATAA
48655316 TTTTTTTTACTTTTTTCGTATACTGGTGCC-AGCCATTGACAGACC-AAAAA-TAAAAAAAATTG
1 TTTTTTTTACTTTTTTCGTATACTGGTGCCTA-CCATTGAC--ACCAAAAAAGTAAAAAAAATTG
* * *
48655378 GAAACAGGTGGAGCTGGCCATTGGCAGGCCACCACC-----A-AA
63 AAAACAGGTGGAGCCGACCATTGGCAGGCCACCACCAAAAAATAA
** *
48655417 TTTTTTTT-CTTTTTTCGTATACTGGTGCCGGCCATTGACACGAAAAAAGTAAAAAAAATTGGGA
1 TTTTTTTTACTTTTTTCGTATACTGGTGCCTACCATTGACACCAAAAAAGTAAAAAAAATT--GA
* * *
48655481 AAA-AGGTGGTGCTGGCCATTGGCAGGCCACCACCAAAACAAT--
64 AAACAGGTGGAGCCGACCATTGGCAGGCCACCACCAAAA-AATAA
* * * * *
48655523 TTTTTTTTACTTTTTTCGTATACTGATGCCAACCATTGACAGACTAAAAA-TAAAAAAAAATTGG
1 TTTTTTTTACTTTTTTCGTATACTGGTGCCTACCATTGACA-CCAAAAAAGT-AAAAAAAATTGA
* *
48655587 AAACAGGTGGAGCCAATCATTGGCAGGCCACCA-CAAAAAA-ACA
64 AAACAGGTGGAGCCGACCATTGGCAGGCCACCACCAAAAAATA-A
*** *
48655630 TTTTTTCCCCTTTTTTCGTATACTGGTG-CTGGCCATTGACAGACC--AAAAGTAAAAAAAATTT
1 TTTTTTTTACTTTTTTCGTATACTGGTGCCT-ACCATTGAC--ACCAAAAAAGTAAAAAAAA-TT
* *
48655692 GGGAAAA-AGGT-GATGCCGGCCATTGGCAGGCCACCAACAAAACAAT--
62 --GAAAACAGGTGGA-GCCGACCATTGGCAGGCCACCACCAAAA-AATAA
* * * * * * * ******
48655738 TTTTTTTTACTTTTTTCGTTTCAAT-G-G-CAAGCACTAGTATACGAAAAAAGTAATTTTTTTTG
1 TTTTTTTTACTTTTTTCGTAT-ACTGGTGCCTACCA-TTG-ACACCAAAAAAGTAAAAAAAATTG
* * *
48655800 CAAAA-AGGTGGTGCC-AGCCATTGGCAGGCCACCATC---AAAT-T
63 -AAAACAGGTGGAGCCGA-CCATTGGCAGGCCACCACCAAAAAATAA
* * **
48655841 TTCTTTTTTACTTTTTTTCGTATATTGGTTCCTACCATTGACATGAAAAAAGTAAAAAAAATTTG
1 TT-TTTTTTAC-TTTTTTCGTATACTGGTGCCTACCATTGACACCAAAAAAGTAAAAAAAA-TTG
* * * *
48655906 AAAAAAGGTGGTGCCGACCATTAGCAGGCTACCAC
63 AAAACAGGTGGAGCCGACCATTGGCAGGCCACCAC
48655941 TAATTTTTTT
Statistics
Matches: 591, Mismatches: 89, Indels: 114
0.74 0.11 0.14
Matches are distributed among these distances:
98 2 0.00
99 5 0.01
100 40 0.07
101 38 0.06
102 8 0.01
103 3 0.01
104 46 0.08
105 35 0.06
106 96 0.16
107 105 0.18
108 111 0.19
109 12 0.02
110 2 0.00
111 43 0.07
112 8 0.01
113 5 0.01
114 32 0.05
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.29
Consensus pattern (107 bp):
TTTTTTTTACTTTTTTCGTATACTGGTGCCTACCATTGACACCAAAAAAGTAAAAAAAATTGAAA
ACAGGTGGAGCCGACCATTGGCAGGCCACCACCAAAAAATAA
Found at i:48655911 original size:106 final size:103
Alignment explanation
Indices: 48655092--48656087 Score: 723
Period size: 107 Copynumber: 9.5 Consensus size: 103
48655082 CCTGTTTTCA
* *
48655092 AAATTTTTTTTTTACTTTTTTCGTTTACTGGTGCCTACCATTGACACCAAAAAAGTAAAAAAAAA
1 AAATTTTTTTTTTACTTTTTTCGTATACTGGTGCCTACCATTGACA-GAAAAAAGT-AAAAAAAA
* *
48655157 TTT--AAAACAGGTGTTGCC-GACCATTGGCAAGCCACCACC
64 TTTGGAAAA-AGGTGGTGCCAG-CCATTGGCAGGCCACCACC
* * * *
48655196 AAAAAATAATTTTTTTTACTTTTTTCGTATACTGATGCCTGCCATTAACATGAAAAAAGTAAAAA
1 ---AAAT-TTTTTTTTTACTTTTTTCGTATACTGGTGCCTACCATTGACA-GAAAAAAGT----A
* * * *
48655261 GAAACAAAATTTGGAAACAGGTGGAGCAAACCATTGGCAGGCCACCACC
57 -AAA-AAAATTTGGAAAAAGGTGGTGCCAGCCATTGGCAGGCCACCACC
48655310 AAATTTTTTTTTTTACTTTTTTCGTATACTGGTGCC-AGCCATTGACAGACCAAAAA-TAAAAAA
1 AAA-TTTTTTTTTTACTTTTTTCGTATACTGGTGCCTA-CCATTGACAGA--AAAAAGTAAAAAA
* * **
48655373 AA-TTGGAAACAGGTGGAGCTGGCCATTGGCAGGCCACCACC
62 AATTTGGAAAAAGGTGGTGCCAGCCATTGGCAGGCCACCACC
**
48655414 AAA--TTTTTTTT-CTTTTTTCGTATACTGGTGCCGGCCATTGACACGAAAAAAGTAAAAAAAAT
1 AAATTTTTTTTTTACTTTTTTCGTATACTGGTGCCTACCATTGACA-GAAAAAAGTAAAAAAAAT
* **
48655476 TGGGAAAAAGGTGGTGCTGGCCATTGGCAGGCCACCACC
65 TTGGAAAAAGGTGGTGCCAGCCATTGGCAGGCCACCACC
* * *
48655515 AAAACAATTTTTTTTTACTTTTTTCGTATACTGATGCCAACCATTGACAGACTAAAAA-TAAAAA
1 --AA-ATTTTTTTTTTACTTTTTTCGTATACTGGTGCCTACCATTGACAGA--AAAAAGTAAAAA
* * * ** *
48655579 AAAATTGGAAACAGGTGGAGCCAATCATTGGCAGGCCACCACAAAA
61 AAATTTGGAAAAAGGTGGTGCCAGCCATTGGCAGGCCACCAC---C
** *** * *
48655625 AAACATTTTTTCCCCTTTTTTCGTATACTGGTG-CTGGCCATTGACAGACCAAAAGTAAAAAAAA
1 AAATTTTTTTTTTACTTTTTTCGTATACTGGTGCCT-ACCATTGACAGA-AAAAAGTAAAAAAAA
* * *
48655689 TTTGGGAAAAAGGTGATGCCGGCCATTGGCAGGCCACCAACAA
64 TTT-GGAAAAAGGTGGTGCCAGCCATTGGCAGGCCACC-AC-C
* * * * ** **
48655732 AACAATTTTTTTTTACTTTTTTCGTTTCAATGGCAAGCACTAGTA-T-AC-GAAAAAAGT-AATT
1 AA-ATTTTTTTTTTACTTTTTTCGTAT-ACTGG--TGC-CTACCATTGACAGAAAAAAGTAAAAA
*** * *
48655793 TTTTTTGCAAAAAGGTGGTGCCAGCCATTGGCAGGCCACCATC
61 AAATTTGGAAAAAGGTGGTGCCAGCCATTGGCAGGCCACCACC
* *
48655836 AAATTTTCTTTTTTACTTTTTTTCGTATATTGGTTCCTACCATTGACATGAAAAAAGTAAAAAAA
1 AAATTTT-TTTTTTAC-TTTTTTCGTATACTGGTGCCTACCATTGACA-GAAAAAAGTAAAAAAA
* * *
48655901 ATTTGAAAAAAGGTGGTGCC-GACCATTAGCAGGCTACCA-C
63 ATTTGGAAAAAGGTGGTGCCAG-CCATTGGCAGGCCACCACC
* * *
48655941 TAATTTTTTTTTT-C-----T--TATACTGGTGCCTACAATTGACACAAAAAAAGTAAAAAAAAA
1 AAATTTTTTTTTTACTTTTTTCGTATACTGGTGCCTACCATTGACA-GAAAAAAGT--AAAAAAA
**** * *
48655998 ATTACT-TTTTAAGGTGGTGCCGGCCATTGGCAGACCACCACC
63 ATT--TGGAAAAAGGTGGTGCCAGCCATTGGCAGGCCACCACC
* ** **
48656040 AAA-TTTTTTTTTACCTTTTTTCATATTTTGGTGCCGGCCATTGACAGA
1 AAATTTTTTTTTTA-CTTTTTTCGTATACTGGTGCCTACCATTGACAGA
48656088 CAAATACCTG
Statistics
Matches: 718, Mismatches: 110, Indels: 123
0.75 0.12 0.13
Matches are distributed among these distances:
95 28 0.04
97 11 0.02
98 34 0.05
99 10 0.01
100 40 0.06
101 50 0.07
102 2 0.00
103 9 0.01
104 60 0.08
105 33 0.05
106 85 0.12
107 148 0.21
108 104 0.14
109 8 0.01
110 4 0.01
111 45 0.06
112 10 0.01
113 9 0.01
114 25 0.03
115 3 0.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (103 bp):
AAATTTTTTTTTTACTTTTTTCGTATACTGGTGCCTACCATTGACAGAAAAAAGTAAAAAAAATT
TGGAAAAAGGTGGTGCCAGCCATTGGCAGGCCACCACC
Found at i:48656593 original size:15 final size:15
Alignment explanation
Indices: 48656569--48656613 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
48656559 AAATTGAATG
* *
48656569 GTCCCGTCCCGTCCA
1 GTCCCATCCCATCCA
48656584 GTCCCATCCCATCCCA
1 GTCCCATCCCAT-CCA
48656600 -TCCCATCCCATCCA
1 GTCCCATCCCATCCA
48656614 TAAACAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
14 3 0.11
15 21 0.78
16 3 0.11
ACGTcount: A:0.16, C:0.56, G:0.09, T:0.20
Consensus pattern (15 bp):
GTCCCATCCCATCCA
Found at i:48656609 original size:5 final size:5
Alignment explanation
Indices: 48656585--48656612 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
48656575 TCCCGTCCAG
48656585 TCCCA TCCCA TCCCA TCCCA TCCCA TCC
1 TCCCA TCCCA TCCCA TCCCA TCCCA TCC
48656613 ATAAACAAAT
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:0.61, G:0.00, T:0.21
Consensus pattern (5 bp):
TCCCA
Found at i:48660853 original size:54 final size:54
Alignment explanation
Indices: 48660789--48660896 Score: 198
Period size: 54 Copynumber: 2.0 Consensus size: 54
48660779 GGTTTTCGCC
* *
48660789 AAATTTATGGTGTTGACTATGATGAAACCTTTTCTTCTGTAGCTATGTTTAAAT
1 AAATTTATGGTGTTGACTATGATGAAACATTTTCTCCTGTAGCTATGTTTAAAT
48660843 AAATTTATGGTGTTGACTATGATGAAACATTTTCTCCTGTAGCTATGTTTAAAT
1 AAATTTATGGTGTTGACTATGATGAAACATTTTCTCCTGTAGCTATGTTTAAAT
48660897 CCATTAGGAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.44
Consensus pattern (54 bp):
AAATTTATGGTGTTGACTATGATGAAACATTTTCTCCTGTAGCTATGTTTAAAT
Found at i:48660888 original size:26 final size:26
Alignment explanation
Indices: 48660805--48660889 Score: 62
Period size: 27 Copynumber: 3.2 Consensus size: 26
48660795 ATGGTGTTGA
* *
48660805 CTATGATGAAACCTTTTCTTCTGTAG
1 CTATGATGAAACATTTTCTCCTGTAG
* * * * * ** *
48660831 CTATGTTTAAATAAATTTATGGTGTTG
1 CTATGATGAAA-CATTTTCTCCTGTAG
48660858 ACTATGATGAAACATTTTCTCCTGTAG
1 -CTATGATGAAACATTTTCTCCTGTAG
48660885 CTATG
1 CTATG
48660890 TTTAAATCCA
Statistics
Matches: 40, Mismatches: 17, Indels: 4
0.66 0.28 0.07
Matches are distributed among these distances:
26 14 0.35
27 17 0.43
28 9 0.22
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.42
Consensus pattern (26 bp):
CTATGATGAAACATTTTCTCCTGTAG
Found at i:48663539 original size:3 final size:3
Alignment explanation
Indices: 48663531--48663558 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
48663521 TTAAAATATG
48663531 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
48663559 ATTGTGAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:48663726 original size:22 final size:24
Alignment explanation
Indices: 48663683--48663729 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
48663673 ATATTTGTGA
48663683 ATAAAATATTATTATATGATTATT
1 ATAAAATATTATTATATGATTATT
* *
48663707 ATAATATATTGTTAT-T-ATTATT
1 ATAAAATATTATTATATGATTATT
48663729 A
1 A
48663730 ACTAATACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 7 0.33
23 1 0.05
24 13 0.62
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (24 bp):
ATAAAATATTATTATATGATTATT
Done.